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056468dc | 1 | ;;; GNU Guix --- Functional package management for GNU |
92ce1883 | 2 | ;;; Copyright © 2015, 2016, 2017, 2018, 2019 Ricardo Wurmus <rekado@elephly.net> |
c80fb90f | 3 | ;;; Copyright © 2016, 2017 Ben Woodcroft <donttrustben@gmail.com> |
ddbf2a98 | 4 | ;;; Copyright © 2017, 2018 Roel Janssen <roel@gnu.org> |
14b78ca6 | 5 | ;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr> |
53cc59a1 | 6 | ;;; Copyright © 2017 Raoul Bonnal <ilpuccio.febo@gmail.com> |
109b2f7c | 7 | ;;; Copyright © 2018 Vijayalakshmi Vedantham <vijimay12@gmail.com> |
c56739df | 8 | ;;; Copyright © 2018 Sahithi Yarlagadda <sahi@swecha.net> |
96e22362 | 9 | ;;; Copyright © 2018 Sandeep Subramanian <sandeepsubramanian94@gmail.com> |
d2a507ef | 10 | ;;; Copyright © 2018 Charlie Ritter <chewzeirta@posteo.net> |
1cde7467 | 11 | ;;; Copyright © 2018 Konrad Hinsen <konrad.hinsen@fastmail.net> |
c994418b | 12 | ;;; Copyright © 2018 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> |
b55697fb | 13 | ;;; Copyright © 2018 Laura Lazzati <laura.lazzati.15@gmail.com> |
60a166c6 | 14 | ;;; Copyright © 2018 Leo Famulari <leo@famulari.name> |
d9bec9a8 | 15 | ;;; Copyright © 2018 Marius Bakke <mbakke@fastmail.com> |
056468dc RW |
16 | ;;; |
17 | ;;; This file is part of GNU Guix. | |
18 | ;;; | |
19 | ;;; GNU Guix is free software; you can redistribute it and/or modify it | |
20 | ;;; under the terms of the GNU General Public License as published by | |
21 | ;;; the Free Software Foundation; either version 3 of the License, or (at | |
22 | ;;; your option) any later version. | |
23 | ;;; | |
24 | ;;; GNU Guix is distributed in the hope that it will be useful, but | |
25 | ;;; WITHOUT ANY WARRANTY; without even the implied warranty of | |
26 | ;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the | |
27 | ;;; GNU General Public License for more details. | |
28 | ;;; | |
29 | ;;; You should have received a copy of the GNU General Public License | |
30 | ;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>. | |
31 | ||
32 | (define-module (gnu packages cran) | |
33 | #:use-module ((guix licenses) #:prefix license:) | |
34 | #:use-module (guix packages) | |
35 | #:use-module (guix download) | |
92ce1883 | 36 | #:use-module (guix git-download) |
056468dc | 37 | #:use-module (guix utils) |
c69d27db | 38 | #:use-module (guix build-system r) |
44b0c5b5 | 39 | #:use-module (gnu packages algebra) |
ff939ef4 | 40 | #:use-module (gnu packages base) |
546fc4aa | 41 | #:use-module (gnu packages compression) |
92ce1883 | 42 | #:use-module (gnu packages curl) |
d9bec9a8 | 43 | #:use-module (gnu packages databases) |
f338e480 | 44 | #:use-module (gnu packages fontutils) |
062b6dbd | 45 | #:use-module (gnu packages gcc) |
d0eb09a1 | 46 | #:use-module (gnu packages ghostscript) |
f338e480 | 47 | #:use-module (gnu packages gl) |
01af264d | 48 | #:use-module (gnu packages gnome) |
3d62d98e | 49 | #:use-module (gnu packages graph) |
01af264d | 50 | #:use-module (gnu packages gtk) |
9b3ecb60 | 51 | #:use-module (gnu packages haskell) |
f338e480 | 52 | #:use-module (gnu packages image) |
92ce1883 RW |
53 | #:use-module (gnu packages javascript) |
54 | #:use-module (gnu packages lisp) | |
f97ce815 | 55 | #:use-module (gnu packages machine-learning) |
521e0703 | 56 | #:use-module (gnu packages maths) |
94989d4b | 57 | #:use-module (gnu packages mpi) |
1ab51604 | 58 | #:use-module (gnu packages multiprecision) |
e0268ff2 | 59 | #:use-module (gnu packages perl) |
e33498b8 | 60 | #:use-module (gnu packages pkg-config) |
9f56ceec | 61 | #:use-module (gnu packages python) |
e0268ff2 | 62 | #:use-module (gnu packages statistics) |
9944399a | 63 | #:use-module (gnu packages tls) |
f338e480 RW |
64 | #:use-module (gnu packages web) |
65 | #:use-module (gnu packages xorg)) | |
056468dc | 66 | |
88e4ed55 RW |
67 | (define-public r-clipr |
68 | (package | |
69 | (name "r-clipr") | |
0c025a7f | 70 | (version "0.5.0") |
88e4ed55 RW |
71 | (source |
72 | (origin | |
73 | (method url-fetch) | |
74 | (uri (cran-uri "clipr" version)) | |
75 | (sha256 | |
76 | (base32 | |
0c025a7f | 77 | "1grx0lyww1cxmdvsr44wmbhz9i6zmiwxbchb97gxrfi9gy5kyc7x")))) |
88e4ed55 RW |
78 | (build-system r-build-system) |
79 | (home-page "https://github.com/mdlincoln/clipr") | |
80 | (synopsis "Read and write from the system clipboard") | |
81 | (description | |
82 | "This package provides simple utility functions to read from and write to | |
83 | the system clipboards.") | |
84 | (license license:gpl3))) | |
85 | ||
c80fb90f RW |
86 | (define-public r-vegan |
87 | (package | |
88 | (name "r-vegan") | |
89 | (version "2.5-3") | |
90 | (source | |
91 | (origin | |
92 | (method url-fetch) | |
93 | (uri (cran-uri "vegan" version)) | |
94 | (sha256 | |
95 | (base32 | |
96 | "023xznh0iy0496icpchadmp7a3rk3nj9s48fvwlvp3dssw58yp3c")))) | |
97 | (build-system r-build-system) | |
98 | (native-inputs | |
99 | `(("gfortran" ,gfortran))) | |
100 | (propagated-inputs | |
101 | `(("r-cluster" ,r-cluster) | |
102 | ("r-knitr" ,r-knitr) ; needed for vignettes | |
103 | ("r-lattice" ,r-lattice) | |
104 | ("r-mass" ,r-mass) | |
105 | ("r-mgcv" ,r-mgcv) | |
106 | ("r-permute" ,r-permute))) | |
107 | (home-page "https://cran.r-project.org/web/packages/vegan") | |
108 | (synopsis "Functions for community ecology") | |
109 | (description | |
110 | "The vegan package provides tools for descriptive community ecology. It | |
111 | has most basic functions of diversity analysis, community ordination and | |
112 | dissimilarity analysis. Most of its multivariate tools can be used for other | |
113 | data types as well.") | |
114 | (license license:gpl2+))) | |
115 | ||
786d3de2 CR |
116 | (define-public r-tidyverse |
117 | (package | |
118 | (name "r-tidyverse") | |
119 | (version "1.2.1") | |
120 | (source | |
121 | (origin | |
122 | (method url-fetch) | |
123 | (uri (cran-uri "tidyverse" version)) | |
124 | (sha256 | |
125 | (base32 | |
126 | "0yy3fkjksgcn6wkbgsb0pbnmsyqs4m01mziqafhig578nixs4rxd")))) | |
127 | (build-system r-build-system) | |
128 | (propagated-inputs | |
129 | `(("r-broom" ,r-broom) | |
130 | ("r-cli" ,r-cli) | |
131 | ("r-crayon" ,r-crayon) | |
132 | ("r-dbplyr" ,r-dbplyr) | |
133 | ("r-dplyr" ,r-dplyr) | |
134 | ("r-forcats" ,r-forcats) | |
135 | ("r-ggplot2" ,r-ggplot2) | |
136 | ("r-haven" ,r-haven) | |
137 | ("r-hms" ,r-hms) | |
138 | ("r-httr" ,r-httr) | |
139 | ("r-jsonlite" ,r-jsonlite) | |
140 | ("r-lubridate" ,r-lubridate) | |
141 | ("r-magrittr" ,r-magrittr) | |
142 | ("r-modelr" ,r-modelr) | |
143 | ("r-purrr" ,r-purrr) | |
144 | ("r-readr" ,r-readr) | |
145 | ("r-readxl" ,r-readxl) | |
146 | ("r-reprex" ,r-reprex) | |
147 | ("r-rlang" ,r-rlang) | |
148 | ("r-rstudioapi" ,r-rstudioapi) | |
149 | ("r-rvest" ,r-rvest) | |
150 | ("r-stringr" ,r-stringr) | |
151 | ("r-tibble" ,r-tibble) | |
152 | ("r-tidyr" ,r-tidyr) | |
153 | ("r-xml2" ,r-xml2))) | |
154 | (home-page "https://tidyverse.tidyverse.org") | |
155 | (synopsis "Install and load packages from the \"Tidyverse\"") | |
156 | (description | |
157 | "The @code{tidyverse} is a set of packages that work in harmony because | |
158 | they share common data representations and API design. This package is | |
159 | designed to make it easy to install and load multiple tidyverse packages in a | |
160 | single step.") | |
161 | (license license:gpl3))) | |
162 | ||
8a1ef6ac CR |
163 | (define-public r-rvest |
164 | (package | |
165 | (name "r-rvest") | |
166 | (version "0.3.2") | |
167 | (source | |
168 | (origin | |
169 | (method url-fetch) | |
170 | (uri (cran-uri "rvest" version)) | |
171 | (sha256 | |
172 | (base32 | |
173 | "04mv99z8dixywx96kfy4215g6ib23s7qvd77hcf9pxqxzcvqhvhd")))) | |
174 | (build-system r-build-system) | |
175 | (propagated-inputs | |
176 | `(("r-httr" ,r-httr) | |
177 | ("r-magrittr" ,r-magrittr) | |
178 | ("r-selectr" ,r-selectr) | |
179 | ("r-xml2" ,r-xml2))) | |
180 | (home-page "https://github.com/hadley/rvest") | |
181 | (synopsis "Simple web scraping for R") | |
182 | (description | |
183 | "@code{r-rvest} helps you scrape information from web pages. It is | |
184 | designed to work with @code{magrittr} to make it easy to express common web | |
185 | scraping tasks, inspired by libraries like @code{BeautifulSoup}.") | |
186 | (license license:gpl3))) | |
187 | ||
81a9d4a4 CR |
188 | (define-public r-selectr |
189 | (package | |
190 | (name "r-selectr") | |
41e8bd77 | 191 | (version "0.4-1") |
81a9d4a4 CR |
192 | (source |
193 | (origin | |
194 | (method url-fetch) | |
195 | (uri (cran-uri "selectr" version)) | |
196 | (sha256 | |
197 | (base32 | |
41e8bd77 | 198 | "1jp27rxks4w29l47k42869hp8hnkzq2rnvsqbr44wd19fqb2zm4b")))) |
81a9d4a4 | 199 | (build-system r-build-system) |
41e8bd77 RW |
200 | (propagated-inputs |
201 | `(("r-stringr" ,r-stringr) | |
202 | ("r-r6" ,r-r6))) | |
81a9d4a4 CR |
203 | (home-page "https://sjp.co.nz/projects/selectr/") |
204 | (synopsis "Translate CSS selectors to XPath expressions") | |
205 | (description | |
206 | "@code{r-selectr} translates a CSS3 selector into an equivalent XPath | |
207 | expression. This allows you to use CSS selectors when working with the XML | |
208 | package as it can only evaluate XPath expressions. Also provided are | |
209 | convenience functions useful for using CSS selectors on XML nodes. This | |
210 | package is a port of the Python package @code{cssselect}.") | |
211 | (license license:bsd-3))) | |
212 | ||
948740b0 CR |
213 | (define-public r-reprex |
214 | (package | |
215 | (name "r-reprex") | |
1c9906c2 | 216 | (version "0.2.1") |
948740b0 CR |
217 | (source |
218 | (origin | |
219 | (method url-fetch) | |
220 | (uri (cran-uri "reprex" version)) | |
221 | (sha256 | |
222 | (base32 | |
1c9906c2 | 223 | "1ws5gds453xgfili87r35rz1wn2i7jbqissq98csbiddpkgls8sx")))) |
948740b0 CR |
224 | (build-system r-build-system) |
225 | (propagated-inputs | |
226 | `(("r-callr" ,r-callr) | |
e3c1e93e | 227 | ("r-clipr" ,r-clipr) |
1c9906c2 | 228 | ("r-fs" ,r-fs) |
e3c1e93e | 229 | ("r-rlang" ,r-rlang) |
948740b0 | 230 | ("r-rmarkdown" ,r-rmarkdown) |
e3c1e93e RW |
231 | ("r-whisker" ,r-whisker) |
232 | ("r-withr" ,r-withr))) | |
948740b0 CR |
233 | (home-page "https://github.com/tidyverse/reprex") |
234 | (synopsis "Prepare reproducible R code examples for sharing") | |
235 | (description | |
236 | "This package provides a convenience wrapper that uses the | |
237 | @code{rmarkdown} package to render small snippets of code to target formats | |
238 | that include both code and output. The goal is to encourage the sharing of | |
239 | small, reproducible, and runnable examples on code-oriented websites or email. | |
240 | @code{reprex} also extracts clean, runnable R code from various common formats, | |
241 | such as copy/paste from an R session.") | |
242 | (license license:expat))) | |
243 | ||
10487c30 CR |
244 | (define-public r-callr |
245 | (package | |
246 | (name "r-callr") | |
527c6055 | 247 | (version "3.1.1") |
10487c30 CR |
248 | (source |
249 | (origin | |
250 | (method url-fetch) | |
251 | (uri (cran-uri "callr" version)) | |
252 | (sha256 | |
253 | (base32 | |
527c6055 | 254 | "15l1qfa3aigba2ghgr2gwcjjy7anagrwg8khsd36fymwkmqj5g69")))) |
10487c30 CR |
255 | (build-system r-build-system) |
256 | (propagated-inputs | |
527c6055 | 257 | `(("r-r6" ,r-r6) |
6034a62a | 258 | ("r-processx" ,r-processx))) |
10487c30 CR |
259 | (home-page "https://github.com/r-lib/callr#readme") |
260 | (synopsis "Call R from R") | |
261 | (description | |
262 | "It is sometimes useful to perform a computation in a separate R process, | |
263 | without affecting the current R process at all. This packages does exactly | |
264 | that.") | |
265 | (license license:expat))) | |
266 | ||
d7637e5e CR |
267 | (define-public r-readxl |
268 | (package | |
269 | (name "r-readxl") | |
b140569e | 270 | (version "1.2.0") |
d7637e5e CR |
271 | (source |
272 | (origin | |
273 | (method url-fetch) | |
274 | (uri (cran-uri "readxl" version)) | |
275 | (sha256 | |
276 | (base32 | |
b140569e | 277 | "1mwm389skl4ahcwsmhvx31pjkrn6y9igpnhsczwg6yza886q7j19")))) |
d7637e5e CR |
278 | (build-system r-build-system) |
279 | (propagated-inputs | |
280 | `(("r-cellranger" ,r-cellranger) | |
b140569e | 281 | ("r-progress" ,r-progress) |
d7637e5e CR |
282 | ("r-rcpp" ,r-rcpp) |
283 | ("r-tibble" ,r-tibble))) | |
284 | (home-page "https://readxl.tidyverse.org") | |
285 | (synopsis "Read Excel files") | |
286 | (description | |
287 | "This package lets you import Excel files into R. It supports | |
288 | @file{.xls} via the embedded @code{libxls} C library and @file{.xlsx} via | |
289 | the embedded @code{RapidXML} C++ library.") | |
290 | ;; XXX: This package bundles a copy of 'libxsl' which is BSD-2 and | |
291 | ;; 'rapidxml' which is Boost. | |
292 | (license (list license:gpl3 license:bsd-2 license:boost1.0)))) | |
293 | ||
9a91c925 CR |
294 | (define-public r-modelr |
295 | (package | |
296 | (name "r-modelr") | |
c8ac880c | 297 | (version "0.1.2") |
9a91c925 CR |
298 | (source |
299 | (origin | |
300 | (method url-fetch) | |
301 | (uri (cran-uri "modelr" version)) | |
302 | (sha256 | |
303 | (base32 | |
c8ac880c | 304 | "09whg3q5xq6csbqwgwfwav09vda8vgady5j70sk52xcn232k363a")))) |
9a91c925 CR |
305 | (build-system r-build-system) |
306 | (propagated-inputs | |
307 | `(("r-broom" ,r-broom) | |
308 | ("r-dplyr" ,r-dplyr) | |
309 | ("r-lazyeval" ,r-lazyeval) | |
310 | ("r-magrittr" ,r-magrittr) | |
311 | ("r-purrr" ,r-purrr) | |
312 | ("r-tibble" ,r-tibble) | |
313 | ("r-tidyr" ,r-tidyr))) | |
314 | (home-page "https://github.com/tidyverse/modelr") | |
315 | (synopsis "Helper functions for modelling in pipelines") | |
316 | (description | |
317 | "Functions for modelling that help you seamlessly integrate modelling | |
318 | into a pipeline of data manipulation and visualisation.") | |
319 | (license license:gpl3))) | |
320 | ||
92ce1883 RW |
321 | (define-public r-httpuv |
322 | (package | |
323 | (name "r-httpuv") | |
37349c71 | 324 | (version "1.4.5.1") |
92ce1883 RW |
325 | (source (origin |
326 | (method url-fetch) | |
327 | (uri (cran-uri "httpuv" version)) | |
328 | (sha256 | |
329 | (base32 | |
37349c71 | 330 | "0mqd40jckdpkjw1jjd860cdwkb03l6dkh931maijfdaqr1w9hwvn")))) |
92ce1883 RW |
331 | (build-system r-build-system) |
332 | (native-inputs | |
333 | `(("r-rcpp" ,r-rcpp) | |
334 | ("pkg-config" ,pkg-config))) | |
335 | (propagated-inputs | |
336 | `(("r-bh" ,r-bh) | |
337 | ("r-later" ,r-later) | |
338 | ("r-promises" ,r-promises))) | |
339 | (home-page "https://github.com/rstudio/httpuv") | |
340 | (synopsis "HTTP and WebSocket server library for R") | |
341 | (description | |
342 | "The httpuv package provides low-level socket and protocol support for | |
343 | handling HTTP and WebSocket requests directly from within R. It is primarily | |
344 | intended as a building block for other packages, rather than making it | |
345 | particularly easy to create complete web applications using httpuv alone.") | |
346 | ;; This package includes third-party code that was originally released | |
347 | ;; under various non-copyleft licenses. Full licensing information can be | |
348 | ;; obtained here: https://github.com/rstudio/httpuv/blob/master/LICENSE | |
349 | (license license:gpl3+))) | |
350 | ||
351 | (define-public r-jsonlite | |
352 | (package | |
353 | (name "r-jsonlite") | |
a2315c67 | 354 | (version "1.6") |
92ce1883 RW |
355 | (source (origin |
356 | (method url-fetch) | |
357 | (uri (cran-uri "jsonlite" version)) | |
358 | (sha256 | |
359 | (base32 | |
a2315c67 | 360 | "0lyvhnr6n57h3a89bvipii7x17nvfaycm9j5j50bfrlr48jv9ic8")))) |
92ce1883 RW |
361 | (build-system r-build-system) |
362 | (home-page "http://arxiv.org/abs/1403.2805") | |
363 | (synopsis "Robust, high performance JSON parser and generator for R") | |
364 | (description | |
365 | "The jsonlite package provides a fast JSON parser and generator optimized | |
366 | for statistical data and the web. It offers flexible, robust, high | |
367 | performance tools for working with JSON in R and is particularly powerful for | |
368 | building pipelines and interacting with a web API. In addition to converting | |
369 | JSON data from/to R objects, jsonlite contains functions to stream, validate, | |
370 | and prettify JSON data. The unit tests included with the package verify that | |
371 | all edge cases are encoded and decoded consistently for use with dynamic data | |
372 | in systems and applications.") | |
373 | (license license:expat))) | |
374 | ||
375 | (define-public r-servr | |
376 | (package | |
377 | (name "r-servr") | |
378 | (version "0.11") | |
379 | (source (origin | |
380 | (method url-fetch) | |
381 | (uri (cran-uri "servr" version)) | |
382 | (sha256 | |
383 | (base32 | |
384 | "0yj3p1risf269n25dd56lqv82dsxv6a0aq4bcc1ddn9wv7h2xdfi")))) | |
385 | (build-system r-build-system) | |
386 | (propagated-inputs | |
387 | `(("r-httpuv" ,r-httpuv) | |
388 | ("r-jsonlite" ,r-jsonlite) | |
389 | ("r-mime" ,r-mime) | |
390 | ("r-xfun" ,r-xfun))) | |
391 | (home-page "https://github.com/yihui/servr") | |
392 | (synopsis "Simple HTTP server to serve static files or dynamic documents") | |
393 | (description | |
394 | "Servr provides an HTTP server in R to serve static files, or dynamic | |
395 | documents that can be converted to HTML files (e.g., R Markdown) under a given | |
396 | directory.") | |
397 | (license license:expat))) | |
398 | ||
399 | (define-public r-htmltools | |
400 | (package | |
401 | (name "r-htmltools") | |
402 | (version "0.3.6") | |
403 | (source (origin | |
404 | (method url-fetch) | |
405 | (uri (cran-uri "htmltools" version)) | |
406 | (sha256 | |
407 | (base32 | |
408 | "18k8r1s8sz1jy7dkz35n69wj20xhmllr53xmwb4pdzf2z61gpbs4")))) | |
409 | (build-system r-build-system) | |
410 | (arguments | |
411 | `(#:phases | |
412 | (modify-phases %standard-phases | |
413 | ;; See https://github.com/rstudio/htmltools/pull/68 | |
414 | ;; The resource files are in the store and have mode 444. After | |
415 | ;; copying the files R fails to remove them again because it doesn't | |
416 | ;; have write access to them. | |
417 | (add-after 'unpack 'copy-files-without-mode | |
418 | (lambda _ | |
419 | (substitute* "R/html_dependency.R" | |
420 | (("file.copy\\(from, to, " prefix) | |
421 | (string-append prefix | |
422 | "copy.mode = FALSE, "))) | |
423 | #t))))) | |
424 | (propagated-inputs | |
425 | `(("r-digest" ,r-digest) | |
426 | ("r-rcpp" ,r-rcpp))) | |
427 | (home-page "https://cran.r-project.org/web/packages/htmltools") | |
428 | (synopsis "R tools for HTML") | |
429 | (description | |
430 | "This package provides tools for HTML generation and output in R.") | |
431 | (license license:expat))) | |
432 | ||
433 | (define-public r-htmlwidgets | |
434 | (package | |
435 | (name "r-htmlwidgets") | |
436 | (version "1.3") | |
437 | (source (origin | |
438 | (method url-fetch) | |
439 | (uri (cran-uri "htmlwidgets" version)) | |
440 | (sha256 | |
441 | (base32 | |
442 | "04jsdh14l2zifbjpbbh23w7bxz1wpsas0zb2gy2zwv4yqamzzr7i")))) | |
443 | (build-system r-build-system) | |
444 | (propagated-inputs | |
445 | `(("r-htmltools" ,r-htmltools) | |
446 | ("r-jsonlite" ,r-jsonlite) | |
447 | ("r-yaml" ,r-yaml))) | |
448 | (home-page "https://github.com/ramnathv/htmlwidgets") | |
449 | (synopsis "HTML Widgets for R") | |
450 | (description | |
451 | "HTML widgets is a framework for creating HTML widgets that render in | |
452 | various contexts including the R console, R Markdown documents, and Shiny web | |
453 | applications.") | |
454 | (license license:expat))) | |
455 | ||
456 | (define-public r-htmltable | |
457 | (package | |
458 | (name "r-htmltable") | |
1add168a | 459 | (version "1.13.1") |
92ce1883 RW |
460 | (source |
461 | (origin | |
462 | (method url-fetch) | |
463 | (uri (cran-uri "htmlTable" version)) | |
464 | (sha256 | |
465 | (base32 | |
1add168a | 466 | "1l44b33xgj2698k6nz17r8fl0ink14ryzng803apm9d6bnv357v8")))) |
92ce1883 RW |
467 | (properties `((upstream-name . "htmlTable"))) |
468 | (build-system r-build-system) | |
469 | (propagated-inputs | |
470 | `(("r-checkmate" ,r-checkmate) | |
471 | ("r-htmltools" ,r-htmltools) | |
472 | ("r-htmlwidgets" ,r-htmlwidgets) | |
473 | ("r-knitr" ,r-knitr) | |
474 | ("r-magrittr" ,r-magrittr) | |
475 | ("r-rstudioapi" ,r-rstudioapi) | |
476 | ("r-stringr" ,r-stringr))) | |
477 | (home-page "http://gforge.se/packages/") | |
478 | (synopsis "Advanced tables for Markdown/HTML") | |
479 | (description | |
480 | "This package provides functions to build tables with advanced layout | |
481 | elements such as row spanners, column spanners, table spanners, zebra | |
482 | striping, and more. While allowing advanced layout, the underlying | |
483 | CSS-structure is simple in order to maximize compatibility with word | |
484 | processors such as LibreOffice. The package also contains a few text | |
485 | formatting functions that help outputting text compatible with HTML or | |
486 | LaTeX.") | |
487 | (license license:gpl3+))) | |
488 | ||
489 | (define-public r-curl | |
490 | (package | |
491 | (name "r-curl") | |
646e1ef0 | 492 | (version "3.3") |
92ce1883 RW |
493 | (source (origin |
494 | (method url-fetch) | |
495 | (uri (cran-uri "curl" version)) | |
496 | (sha256 | |
497 | (base32 | |
646e1ef0 | 498 | "1gd5i25anzi28lg1f8p7g63z9d46xi0qaw4lxpml5p0f52lvkc0c")))) |
92ce1883 RW |
499 | (build-system r-build-system) |
500 | (arguments | |
501 | `(#:phases | |
502 | (modify-phases %standard-phases | |
503 | ;; The environment variable CURL_CA_BUNDLE is only respected when | |
504 | ;; running Windows, so we disable the platform checks. | |
505 | ;; This can be removed once the libcurl has been patched. | |
506 | (add-after 'unpack 'allow-CURL_CA_BUNDLE | |
507 | (lambda _ | |
508 | (substitute* "R/onload.R" | |
509 | (("if \\(!grepl\\(\"mingw\".*") | |
510 | "if (FALSE)\n")) | |
511 | (substitute* "src/handle.c" | |
512 | (("#ifdef _WIN32") "#if 1")) | |
513 | #t))))) | |
514 | (inputs | |
646e1ef0 RW |
515 | `(("libcurl" ,curl) |
516 | ("zlib" ,zlib))) | |
517 | (native-inputs | |
518 | `(("pkg-config" ,pkg-config))) | |
92ce1883 RW |
519 | (home-page "https://github.com/jeroenooms/curl") |
520 | (synopsis "HTTP client for R") | |
521 | (description | |
522 | "The @code{curl()} and @code{curl_download()} functions provide highly | |
523 | configurable drop-in replacements for base @code{url()} and | |
524 | @code{download.file()} with better performance, support for encryption, gzip | |
525 | compression, authentication, and other @code{libcurl} goodies. The core of | |
526 | the package implements a framework for performing fully customized requests | |
527 | where data can be processed either in memory, on disk, or streaming via the | |
528 | callback or connection interfaces.") | |
529 | (license license:expat))) | |
530 | ||
531 | (define-public r-hwriter | |
532 | (package | |
533 | (name "r-hwriter") | |
534 | (version "1.3.2") | |
535 | (source | |
536 | (origin | |
537 | (method url-fetch) | |
538 | (uri (cran-uri "hwriter" version)) | |
539 | (sha256 | |
540 | (base32 | |
541 | "0arjsz854rfkfqhgvpqbm9lfni97dcjs66isdsfvwfd2wz932dbb")))) | |
542 | (build-system r-build-system) | |
543 | (home-page "https://cran.r-project.org/web/packages/hwriter") | |
544 | (synopsis "Output R objects in HTML format") | |
545 | (description | |
546 | "This package provides easy-to-use and versatile functions to output R | |
547 | objects in HTML format.") | |
548 | (license license:lgpl2.1+))) | |
549 | ||
550 | (define-public r-rjson | |
551 | (package | |
552 | (name "r-rjson") | |
553 | (version "0.2.20") | |
554 | (source | |
555 | (origin | |
556 | (method url-fetch) | |
557 | (uri (cran-uri "rjson" version)) | |
558 | (sha256 | |
559 | (base32 | |
560 | "0v1zvdd3svnavklh7y5xbwrrkbvx6053r4c5hgnk7hz7bqg7qa1s")))) | |
561 | (build-system r-build-system) | |
562 | (home-page "https://cran.r-project.org/web/packages/rjson") | |
563 | (synopsis "JSON library for R") | |
564 | (description | |
565 | "This package provides functions to convert R objects into JSON objects | |
566 | and vice-versa.") | |
567 | (license license:gpl2+))) | |
568 | ||
569 | (define-public r-shiny | |
570 | (package | |
571 | (name "r-shiny") | |
572 | (version "1.1.0") | |
573 | (source | |
574 | (origin | |
575 | (method git-fetch) | |
576 | (uri (git-reference | |
577 | (url "https://github.com/rstudio/shiny.git") | |
578 | (commit (string-append "v" version)))) | |
579 | (file-name (git-file-name name version)) | |
580 | (sha256 | |
581 | (base32 | |
582 | "041q2gzvzs13syfhbirmkik96asdji8dxnnbs63j7v1ks97hrvvz")))) | |
583 | (build-system r-build-system) | |
584 | (arguments | |
585 | `(#:modules ((guix build r-build-system) | |
586 | (guix build minify-build-system) | |
587 | (guix build utils) | |
588 | (ice-9 match)) | |
589 | #:imported-modules (,@%r-build-system-modules | |
590 | (guix build minify-build-system)) | |
591 | #:phases | |
592 | (modify-phases (@ (guix build r-build-system) %standard-phases) | |
593 | (add-after 'unpack 'replace-bundled-minified-JavaScript | |
594 | (lambda* (#:key inputs #:allow-other-keys) | |
595 | (let ((replace-file (lambda (old new) | |
596 | (format #t "replacing ~a with ~a\n" old new) | |
597 | (delete-file old) | |
598 | (symlink new old)))) | |
599 | ;; NOTE: Files in ./inst/www/shared/datepicker/js/locales/ | |
600 | ;; contain just data. They are not minified code, so we don't | |
601 | ;; replace them. | |
602 | (with-directory-excursion "inst/www/shared" | |
603 | (replace-file "bootstrap/shim/respond.min.js" | |
604 | (string-append (assoc-ref inputs "js-respond") | |
605 | "/share/javascript/respond.min.js")) | |
606 | (replace-file "bootstrap/shim/html5shiv.min.js" | |
607 | (string-append (assoc-ref inputs "js-html5shiv") | |
608 | "/share/javascript/html5shiv.min.js")) | |
609 | (replace-file "json2-min.js" | |
610 | (string-append (assoc-ref inputs "js-json2") | |
611 | "/share/javascript/json2.min.js")) | |
612 | (replace-file "strftime/strftime-min.js" | |
613 | (string-append (assoc-ref inputs "js-strftime") | |
614 | "/share/javascript/strftime.min.js")) | |
615 | (replace-file "highlight/highlight.pack.js" | |
616 | (string-append (assoc-ref inputs "js-highlight") | |
617 | "/share/javascript/highlight.min.js")) | |
618 | (replace-file "datatables/js/jquery.dataTables.min.js" | |
619 | (string-append (assoc-ref inputs "js-datatables") | |
620 | "/share/javascript/jquery.dataTables.min.js")) | |
621 | (replace-file "selectize/js/selectize.min.js" | |
622 | (string-append (assoc-ref inputs "js-selectize") | |
623 | "/share/javascript/selectize.min.js")) | |
624 | (replace-file "selectize/js/es5-shim.min.js" | |
625 | (string-append (assoc-ref inputs "js-es5-shim") | |
626 | "/share/javascript/es5-shim.min.js")) | |
627 | (for-each (match-lambda | |
628 | ((source . target) | |
629 | (delete-file target) | |
630 | (minify source #:target target))) | |
631 | '(("jqueryui/jquery-ui.js" . | |
632 | "jqueryui/jquery-ui.min.js") | |
633 | ("showdown/src/showdown.js" . | |
634 | "showdown/compressed/showdown.js") | |
635 | ("datepicker/js/bootstrap-datepicker.js" . | |
636 | "datepicker/js/bootstrap-datepicker.min.js") | |
637 | ("ionrangeslider/js/ion.rangeSlider.js" . | |
638 | "ionrangeslider/js/ion.rangeSlider.min.js") | |
639 | ("bootstrap/js/bootstrap.js" . | |
640 | "bootstrap/js/bootstrap.min.js") | |
641 | ("shiny.js" . | |
642 | "shiny.min.js") | |
643 | ("jquery.js" . | |
644 | "jquery.min.js"))))) | |
645 | #t))))) | |
646 | (propagated-inputs | |
647 | `(("r-crayon" ,r-crayon) | |
648 | ("r-httpuv" ,r-httpuv) | |
649 | ("r-mime" ,r-mime) | |
650 | ("r-jsonlite" ,r-jsonlite) | |
651 | ("r-xtable" ,r-xtable) | |
652 | ("r-digest" ,r-digest) | |
653 | ("r-htmltools" ,r-htmltools) | |
654 | ("r-r6" ,r-r6) | |
655 | ("r-sourcetools" ,r-sourcetools))) | |
656 | (inputs | |
657 | `(("js-datatables" ,js-datatables) | |
658 | ("js-html5shiv" ,js-html5shiv) | |
659 | ("js-json2" ,js-json2) | |
660 | ("js-respond" ,js-respond) | |
661 | ("js-selectize" ,js-selectize) | |
662 | ("js-strftime" ,js-strftime) | |
663 | ("js-highlight" ,js-highlight) | |
664 | ("js-es5-shim" ,js-es5-shim))) | |
665 | (home-page "http://shiny.rstudio.com") | |
666 | (synopsis "Easy interactive web applications with R") | |
667 | (description | |
668 | "Makes it incredibly easy to build interactive web applications | |
669 | with R. Automatic \"reactive\" binding between inputs and outputs and | |
670 | extensive prebuilt widgets make it possible to build beautiful, | |
671 | responsive, and powerful applications with minimal effort.") | |
672 | (license license:artistic2.0))) | |
673 | ||
674 | (define-public r-shinydashboard | |
675 | (package | |
676 | (name "r-shinydashboard") | |
677 | (version "0.7.1") | |
678 | (source (origin | |
679 | (method url-fetch) | |
680 | (uri (cran-uri "shinydashboard" version)) | |
681 | (sha256 | |
682 | (base32 | |
683 | "0khac8b27q3swdw07kl609hm0fjfjsjv591b388q99mqqr2rk92i")))) | |
684 | (build-system r-build-system) | |
685 | ;; The directory inst/AdminLTE/ contains a minified JavaScript file. | |
686 | ;; Regenerate it from the included sources. | |
687 | (arguments | |
688 | `(#:modules ((guix build utils) | |
689 | (guix build r-build-system) | |
690 | (ice-9 popen)) | |
691 | #:phases | |
692 | (modify-phases %standard-phases | |
693 | (add-after 'unpack 'generate-minified-javascript | |
694 | (lambda _ | |
695 | (with-directory-excursion "inst/AdminLTE" | |
696 | (delete-file "app.min.js") | |
697 | (let ((minified (open-pipe* OPEN_READ "uglify-js" "app.js"))) | |
698 | (call-with-output-file "app.min.js" | |
699 | (lambda (port) | |
700 | (dump-port minified port)))))))))) | |
701 | (propagated-inputs | |
702 | `(("r-htmltools" ,r-htmltools) | |
703 | ("r-promises" ,r-promises) | |
704 | ("r-shiny" ,r-shiny))) | |
705 | (native-inputs | |
706 | `(("uglify-js" ,uglify-js))) | |
707 | (home-page "http://rstudio.github.io/shinydashboard/") | |
708 | (synopsis "Create dashboards with shiny") | |
709 | (description "This package provides an extension to the Shiny web | |
710 | application framework for R, making it easy to create attractive dashboards.") | |
711 | ;; This package includes software that was released under the Expat | |
712 | ;; license, but the whole package is released under GPL version 2 or | |
713 | ;; later. | |
714 | (license license:gpl2+))) | |
715 | ||
716 | (define-public r-shinyfiles | |
717 | (package | |
718 | (name "r-shinyfiles") | |
719 | (version "0.7.2") | |
720 | (source | |
721 | (origin | |
722 | (method url-fetch) | |
723 | (uri (cran-uri "shinyFiles" version)) | |
724 | (sha256 | |
725 | (base32 | |
726 | "0dlcjrw96x72grg6j915070x8x98l7629pn86gf148iknflm7gd5")))) | |
727 | (properties `((upstream-name . "shinyFiles"))) | |
728 | (build-system r-build-system) | |
729 | (propagated-inputs | |
730 | `(("r-fs" ,r-fs) | |
731 | ("r-htmltools" ,r-htmltools) | |
732 | ("r-jsonlite" ,r-jsonlite) | |
733 | ("r-shiny" ,r-shiny) | |
734 | ("r-tibble" ,r-tibble))) | |
735 | (home-page "https://github.com/thomasp85/shinyFiles") | |
736 | (synopsis "Server-side file system viewer for Shiny") | |
737 | (description | |
738 | "This package provides functionality for client-side navigation of the | |
739 | server side file system in shiny apps. In case the app is running locally | |
740 | this gives the user direct access to the file system without the need to | |
741 | \"download\" files to a temporary location. Both file and folder selection as | |
742 | well as file saving is available.") | |
743 | (license license:gpl2+))) | |
744 | ||
745 | (define-public r-crosstalk | |
746 | (package | |
747 | (name "r-crosstalk") | |
748 | (version "1.0.0") | |
749 | (source | |
750 | (origin | |
751 | (method url-fetch) | |
752 | (uri (cran-uri "crosstalk" version)) | |
753 | (sha256 | |
754 | (base32 | |
755 | "0lfa89vhrzi7a1rghmygcjr8gzddw35sinb3jx6g49mc9jias7mk")))) | |
756 | (build-system r-build-system) | |
757 | (propagated-inputs | |
758 | `(("r-ggplot2" ,r-ggplot2) | |
759 | ("r-htmltools" ,r-htmltools) | |
760 | ("r-jsonlite" ,r-jsonlite) | |
761 | ("r-lazyeval" ,r-lazyeval) | |
762 | ("r-r6" ,r-r6) | |
763 | ("r-shiny" ,r-shiny))) | |
764 | (home-page "https://rstudio.github.io/crosstalk/") | |
765 | (synopsis "Inter-widget interactivity for HTML widgets") | |
766 | (description | |
767 | "This package provides building blocks for allowing HTML widgets to | |
768 | communicate with each other, with Shiny or without (i.e. static @code{.html} | |
769 | files). It currently supports linked brushing and filtering.") | |
770 | (license license:expat))) | |
771 | ||
772 | (define-public r-rook | |
773 | (package | |
774 | (name "r-rook") | |
775 | (version "1.1-1") | |
776 | (source | |
777 | (origin | |
778 | (method url-fetch) | |
779 | (uri (cran-uri "Rook" version)) | |
780 | (sha256 | |
781 | (base32 | |
782 | "00s9a0kr9rwxvlq433daxjk4ji8m0w60hjdprf502msw9kxfrx00")))) | |
783 | (properties `((upstream-name . "Rook"))) | |
784 | (build-system r-build-system) | |
785 | (propagated-inputs `(("r-brew" ,r-brew))) | |
786 | (home-page "https://cran.r-project.org/web/packages/Rook") | |
787 | (synopsis "Web server interface for R") | |
788 | (description | |
789 | "This package contains the Rook specification and convenience software | |
790 | for building and running Rook applications. A Rook application is an R | |
791 | reference class object that implements a @code{call} method or an R closure | |
792 | that takes exactly one argument, an environment, and returns a list with three | |
793 | named elements: the @code{status}, the @code{headers}, and the @code{body}.") | |
794 | (license license:gpl2))) | |
795 | ||
796 | (define-public r-miniui | |
797 | (package | |
798 | (name "r-miniui") | |
799 | (version "0.1.1.1") | |
800 | (source | |
801 | (origin | |
802 | (method url-fetch) | |
803 | (uri (cran-uri "miniUI" version)) | |
804 | (sha256 | |
805 | (base32 | |
806 | "1h5h2sc57h95d6bsgs95l26911g38hvjc1v50bc31xl9689l2as5")))) | |
807 | (properties `((upstream-name . "miniUI"))) | |
808 | (build-system r-build-system) | |
809 | (propagated-inputs | |
810 | `(("r-htmltools" ,r-htmltools) | |
811 | ("r-shiny" ,r-shiny))) | |
812 | (home-page "https://cran.r-project.org/web/packages/miniUI/") | |
813 | (synopsis "Shiny UI widgets for small screens") | |
814 | (description | |
815 | "This package provides UI widget and layout functions for writing Shiny apps that | |
816 | work well on small screens.") | |
817 | (license license:gpl3))) | |
818 | ||
60a166c6 RW |
819 | (define-public r-feather |
820 | (package | |
821 | (name "r-feather") | |
69aad34a | 822 | (version "0.3.2") |
60a166c6 RW |
823 | (source |
824 | (origin | |
825 | (method url-fetch) | |
826 | (uri (cran-uri "feather" version)) | |
827 | (sha256 | |
828 | (base32 | |
69aad34a | 829 | "138vnlwhkwayyim4rbx6rnf91kzhfij6v2f91ppx2174ky5611h6")))) |
60a166c6 RW |
830 | (build-system r-build-system) |
831 | (propagated-inputs | |
832 | `(("r-hms" ,r-hms) | |
833 | ("r-rcpp" ,r-rcpp) | |
834 | ("r-tibble" ,r-tibble))) | |
835 | (home-page "https://github.com/wesm/feather") | |
836 | (synopsis "R Bindings to the Feather API") | |
837 | (description "Read and write feather files, a lightweight binary columnar | |
838 | data store designed for maximum speed.") | |
839 | (license license:asl2.0))) | |
840 | ||
2a2760a0 RW |
841 | (define-public r-maps |
842 | (package | |
843 | (name "r-maps") | |
844 | (version "3.3.0") | |
845 | (source | |
846 | (origin | |
847 | (method url-fetch) | |
848 | (uri (cran-uri "maps" version)) | |
849 | (sha256 | |
850 | (base32 | |
851 | "05i2ppl5z4p8rawgqmy3z4ia05fcblpq1vvrmrkgkkpdlhczx6hr")))) | |
852 | (build-system r-build-system) | |
853 | (home-page "https://cran.r-project.org/web/packages/maps") | |
854 | (synopsis "Draw geographical maps") | |
855 | (description "This package provides an R module for display of maps. | |
856 | Projection code and larger maps are in separate packages ('mapproj' and | |
857 | 'mapdata').") | |
858 | (license license:gpl2))) | |
859 | ||
860 | (define-public r-mapproj | |
861 | (package | |
862 | (name "r-mapproj") | |
863 | (version "1.2.6") | |
864 | (source | |
865 | (origin | |
866 | (method url-fetch) | |
867 | (uri (cran-uri "mapproj" version)) | |
868 | (sha256 | |
869 | (base32 | |
870 | "1rggww8cbwv0vzlj5afzhbsbngg4bzj5znbkz7wmxsbshfbsm9b2")))) | |
871 | (build-system r-build-system) | |
872 | (propagated-inputs `(("r-maps" ,r-maps))) | |
873 | (home-page "https://cran.r-project.org/web/packages/mapproj") | |
874 | (synopsis "Map projection in R") | |
875 | (description "This package converts latitude/longitude into projected | |
876 | coordinates.") | |
877 | (license (list license:gpl2 ; The R interface | |
878 | (license:non-copyleft ; The C code | |
879 | "https://www.gnu.org/licenses/license-list.en.html#lucent102" | |
880 | "Lucent Public License Version 1.02"))))) | |
881 | ||
882 | (define-public r-rgooglemaps | |
883 | (package | |
884 | (name "r-rgooglemaps") | |
885 | (version "1.4.3") | |
886 | (source | |
887 | (origin | |
888 | (method url-fetch) | |
889 | (uri (cran-uri "RgoogleMaps" version)) | |
890 | (sha256 | |
891 | (base32 | |
892 | "06ab3lg1rwm93hkshf1vxfm8mlxq5qsjan0wx43lhnrysay65js4")))) | |
893 | (properties `((upstream-name . "RgoogleMaps"))) | |
894 | (build-system r-build-system) | |
895 | (propagated-inputs `(("r-png" ,r-png))) | |
896 | (home-page "https://cran.r-project.org/web/packages/RgoogleMaps") | |
897 | (synopsis "Use Google Maps in R") | |
898 | (description "This package serves two purposes: | |
899 | @enumerate | |
900 | @item Provide a comfortable R interface to query the Google server for static | |
901 | maps, and | |
902 | @item Use the map as a background image to overlay plots within R. This | |
903 | requires proper coordinate scaling. | |
904 | @end enumerate\n") | |
905 | (license license:gpl2+))) | |
906 | ||
907 | (define-public r-geosphere | |
908 | (package | |
909 | (name "r-geosphere") | |
910 | (version "1.5-7") | |
911 | (source | |
912 | (origin | |
913 | (method url-fetch) | |
914 | (uri (cran-uri "geosphere" version)) | |
915 | (sha256 | |
916 | (base32 | |
917 | "186qdm5niq7v3d4w4rngx71znsgi44hnam7698bsx9ar5mg5b6wx")))) | |
918 | (build-system r-build-system) | |
919 | (propagated-inputs `(("r-sp" ,r-sp))) | |
920 | (home-page "https://cran.r-project.org/web/packages/geosphere") | |
921 | (synopsis "Spherical trigonometry") | |
922 | (description "This package computes spherical trigonometry for geographic | |
923 | applications. That is, compute distances and related measures for angular | |
924 | (longitude/latitude) locations.") | |
925 | (license license:gpl3+))) | |
926 | ||
927 | (define-public r-ggmap | |
928 | (package | |
929 | (name "r-ggmap") | |
930 | (version "2.6.1") | |
931 | (source | |
932 | (origin | |
933 | (method url-fetch) | |
934 | (uri (cran-uri "ggmap" version)) | |
935 | (sha256 | |
936 | (base32 | |
937 | "0mssb09w818jv58h7mly9y181pzv22sgcd4a079cfpq04bs0wigw")))) | |
938 | (build-system r-build-system) | |
939 | (propagated-inputs | |
940 | `(("r-digest" ,r-digest) | |
941 | ("r-geosphere" ,r-geosphere) | |
942 | ("r-ggplot2" ,r-ggplot2) | |
943 | ("r-jpeg" ,r-jpeg) | |
944 | ("r-mapproj" ,r-mapproj) | |
945 | ("r-plyr" ,r-plyr) | |
946 | ("r-png" ,r-png) | |
947 | ("r-proto" ,r-proto) | |
948 | ("r-reshape2" ,r-reshape2) | |
949 | ("r-rgooglemaps" ,r-rgooglemaps) | |
950 | ("r-rjson" ,r-rjson) | |
951 | ("r-scales" ,r-scales))) | |
952 | (home-page "https://github.com/dkahle/ggmap") | |
953 | (synopsis "Spatial visualization with ggplot2") | |
954 | (description "This package provides a collection of functions to visualize | |
955 | spatial data and models on top of static maps from various online sources (e.g | |
956 | Google Maps and Stamen Maps). It includes tools common to those tasks, | |
957 | including functions for geolocation and routing.") | |
958 | (license license:gpl2))) | |
959 | ||
d2a507ef CR |
960 | (define-public r-haven |
961 | (package | |
962 | (name "r-haven") | |
dcf89cc0 | 963 | (version "2.0.0") |
d2a507ef CR |
964 | (source |
965 | (origin | |
966 | (method url-fetch) | |
967 | (uri (cran-uri "haven" version)) | |
968 | (sha256 | |
969 | (base32 | |
dcf89cc0 | 970 | "12qh8nba1dxlsmcihrx126wmjyj8n511k17vqj10lfgvpwq2sydy")))) |
d2a507ef | 971 | (build-system r-build-system) |
35b32367 TGR |
972 | (inputs |
973 | `(("zlib" ,zlib))) | |
d2a507ef CR |
974 | (propagated-inputs |
975 | `(("r-forcats" ,r-forcats) | |
976 | ("r-hms" ,r-hms) | |
977 | ("r-rcpp" ,r-rcpp) | |
978 | ("r-readr" ,r-readr) | |
979 | ("r-tibble" ,r-tibble))) | |
980 | (home-page "https://haven.tidyverse.org") | |
981 | (synopsis "Import and Export 'SPSS', 'Stata' and 'SAS' Files") | |
982 | (description | |
983 | "This package lets you mport foreign statistical formats into R via the | |
984 | embedded @url{https://github.com/WizardMac/ReadStat,ReadStat} C library.") | |
985 | (license license:expat))) | |
986 | ||
996bed06 RJ |
987 | (define-public r-amap |
988 | (package | |
989 | (name "r-amap") | |
7c2a4646 | 990 | (version "0.8-16") |
996bed06 RJ |
991 | (source (origin |
992 | (method url-fetch) | |
993 | (uri (cran-uri "amap" version)) | |
994 | (sha256 | |
995 | (base32 | |
7c2a4646 | 996 | "1qnl2x98x64iaipkx5126rsddq2sx5ml43h75xyiyn30yvbmlxyk")))) |
996bed06 RJ |
997 | (build-system r-build-system) |
998 | (inputs | |
999 | `(("gfortran" ,gfortran))) | |
1000 | (home-page "http://mulcyber.toulouse.inra.fr/projects/amap/") | |
1001 | (synopsis "Another multidimensional analysis package") | |
1002 | (description "This package provides tools for clustering and principal | |
1003 | component analysis (with robust methods, and parallelized functions).") | |
1004 | (license license:gpl2+))) | |
1005 | ||
53cc59a1 RW |
1006 | (define-public r-ape |
1007 | (package | |
1008 | (name "r-ape") | |
b62e104b | 1009 | (version "5.2") |
53cc59a1 RW |
1010 | (source |
1011 | (origin | |
1012 | (method url-fetch) | |
1013 | (uri (cran-uri "ape" version)) | |
1014 | (sha256 | |
1015 | (base32 | |
b62e104b | 1016 | "05b4yka5cirdgxd4d7iiaqvr428pk3j6n9q6dvg5j38kdj2h5sr7")))) |
53cc59a1 RW |
1017 | (build-system r-build-system) |
1018 | (propagated-inputs | |
1019 | `(("r-lattice" ,r-lattice) | |
1020 | ("r-nlme" ,r-nlme) | |
1021 | ("r-rcpp" ,r-rcpp))) | |
1022 | (home-page "http://ape-package.ird.fr/") | |
1023 | (synopsis "Analyses of phylogenetics and evolution") | |
1024 | (description | |
1025 | "This package provides functions for reading, writing, plotting, and | |
1026 | manipulating phylogenetic trees, analyses of comparative data in a | |
1027 | phylogenetic framework, ancestral character analyses, analyses of | |
1028 | diversification and macroevolution, computing distances from DNA sequences, | |
1029 | and several other tools.") | |
1030 | (license license:gpl2+))) | |
1031 | ||
109b2f7c VV |
1032 | (define-public r-abbyyr |
1033 | (package | |
1034 | (name "r-abbyyr") | |
5479e3e6 | 1035 | (version "0.5.4") |
109b2f7c VV |
1036 | (source |
1037 | (origin | |
1038 | (method url-fetch) | |
1039 | (uri (cran-uri "abbyyR" version)) | |
1040 | (sha256 | |
1041 | (base32 | |
5479e3e6 | 1042 | "1jh1c1ad6mgw7brdh2isnza1qpjlfxnqr7jl76yd93axyfl76xjx")))) |
109b2f7c VV |
1043 | (properties `((upstream-name . "abbyyR"))) |
1044 | (build-system r-build-system) | |
1045 | (propagated-inputs | |
1046 | `(("r-curl" ,r-curl) | |
1047 | ("r-httr" ,r-httr) | |
1048 | ("r-plyr" ,r-plyr) | |
1049 | ("r-progress" ,r-progress) | |
1050 | ("r-readr" ,r-readr) | |
1051 | ("r-xml" ,r-xml))) | |
1052 | (home-page "https://github.com/soodoku/abbyyR") | |
1053 | (synopsis "Access to Abbyy Optical Character Recognition (OCR) API") | |
1054 | (description | |
1055 | "This package provides tools to get text from images of text using Abbyy | |
1056 | Cloud Optical Character Recognition (OCR) API. With abbyyyR, one can easily | |
1057 | OCR images, barcodes, forms, documents with machine readable zones, e.g. | |
1058 | passports and get the results in a variety of formats including plain text and | |
1059 | XML. To learn more about the Abbyy OCR API, see @url{http://ocrsdk.com/}.") | |
1060 | (license license:expat))) | |
1061 | ||
056468dc RW |
1062 | (define-public r-colorspace |
1063 | (package | |
1064 | (name "r-colorspace") | |
1065 | (version "1.3-2") | |
1066 | (source | |
1067 | (origin | |
1068 | (method url-fetch) | |
1069 | (uri (cran-uri "colorspace" version)) | |
1070 | (sha256 | |
1071 | (base32 "0d1ya7hx4y58n5ivwmdmq2zgh0g2sbv7ykh13n85c1355csd57yx")))) | |
1072 | (build-system r-build-system) | |
e9960d8c | 1073 | (home-page "https://cran.r-project.org/web/packages/colorspace") |
056468dc RW |
1074 | (synopsis "Color space manipulation") |
1075 | (description | |
1076 | "This package carries out a mapping between assorted color spaces | |
1077 | including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB and polar | |
1078 | CIELAB. Qualitative, sequential, and diverging color palettes based on HCL | |
1079 | colors are provided.") | |
1080 | (license license:bsd-3))) | |
5bee6bf4 RW |
1081 | |
1082 | (define-public r-glue | |
1083 | (package | |
1084 | (name "r-glue") | |
b00e8ae7 | 1085 | (version "1.3.0") |
5bee6bf4 RW |
1086 | (source |
1087 | (origin | |
1088 | (method url-fetch) | |
1089 | (uri (cran-uri "glue" version)) | |
1090 | (sha256 | |
1091 | (base32 | |
b00e8ae7 | 1092 | "1vhw5497lpfr4m8lcx9bs0fgdp4ax0sycrk6n8yksp33qd25m7kq")))) |
5bee6bf4 RW |
1093 | (build-system r-build-system) |
1094 | (home-page "https://github.com/tidyverse/glue") | |
1095 | (synopsis "Interpreted string literals") | |
1096 | (description | |
1097 | "This package provides an implementation of interpreted string literals, | |
1098 | inspired by Python's Literal String Interpolation (PEP-0498) and | |
1099 | Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.") | |
1100 | (license license:expat))) | |
847b4572 | 1101 | |
ddbf2a98 RJ |
1102 | (define-public r-pastecs |
1103 | (package | |
1104 | (name "r-pastecs") | |
1105 | (version "1.3.21") | |
1106 | (source (origin | |
1107 | (method url-fetch) | |
1108 | (uri (cran-uri "pastecs" version)) | |
1109 | (sha256 | |
1110 | (base32 | |
1111 | "0z4dic94ar646w7zc2ggi5hgvf2qnznsani94c5pyql8zspz47lc")))) | |
1112 | (build-system r-build-system) | |
1113 | (propagated-inputs | |
1114 | `(("r-boot" ,r-boot))) | |
1115 | (home-page "http://www.sciviews.org/pastecs") | |
1116 | (synopsis "Analysis of space-time ecological series") | |
1117 | (description | |
1118 | "This package provides functions for regulation, decomposition and analysis | |
1119 | of space-time series. The @code{pastecs} library is a PNEC-Art4 and IFREMER | |
1120 | initiative to bring PASSTEC 2000 functionalities to R.") | |
1121 | (license license:gpl2+))) | |
1122 | ||
847b4572 RW |
1123 | (define-public r-plogr |
1124 | (package | |
1125 | (name "r-plogr") | |
0e947804 | 1126 | (version "0.2.0") |
847b4572 RW |
1127 | (source |
1128 | (origin | |
1129 | (method url-fetch) | |
1130 | (uri (cran-uri "plogr" version)) | |
1131 | (sha256 | |
1132 | (base32 | |
0e947804 | 1133 | "0a8dhzlna79ggyhfr0nncgh15a9n6r0dsz664pz0ah323wpblqqf")))) |
847b4572 RW |
1134 | (build-system r-build-system) |
1135 | (home-page "https://github.com/krlmlr/plogr") | |
1136 | (synopsis "R bindings for the plog C++ logging library") | |
1137 | (description | |
1138 | "This package provides the header files for a stripped-down version of | |
1139 | the plog header-only C++ logging library, and a method to log to R's standard | |
1140 | error stream.") | |
1141 | (license license:expat))) | |
a8cba9dd | 1142 | |
a86049d9 TGR |
1143 | (define-public r-pls |
1144 | (package | |
1145 | (name "r-pls") | |
c73752ca | 1146 | (version "2.7-0") |
a86049d9 TGR |
1147 | (source |
1148 | (origin | |
1149 | (method url-fetch) | |
1150 | (uri (cran-uri "pls" version)) | |
1151 | (sha256 | |
1152 | (base32 | |
c73752ca | 1153 | "0xaqqgmdvfh7g7v1m4bcwjqzph68b9cq3bn4kjisfsadl54i5p2x")))) |
a86049d9 TGR |
1154 | (build-system r-build-system) |
1155 | (home-page "http://mevik.net/work/software/pls.html") | |
1156 | (synopsis "Partial Least Squares and Principal Component Regression") | |
1157 | (description | |
1158 | "The pls package implements multivariate regression methods: Partial Least | |
1159 | Squares Regression (@dfn{PLSR}), Principal Component Regression (@dfn{PCR}), and | |
1160 | Canonical Powered Partial Least Squares (@dfn{CPPLS}). It supports: | |
1161 | ||
1162 | @itemize | |
1163 | @item several algorithms: the traditional orthogonal scores (@dfn{NIPALS}) PLS | |
1164 | algorithm, kernel PLS, wide kernel PLS, Simpls, and PCR through @code{svd} | |
1165 | @item multi-response models (or @dfn{PLS2}) | |
1166 | @item flexible cross-validation | |
1167 | @item Jackknife variance estimates of regression coefficients | |
1168 | @item extensive and flexible plots: scores, loadings, predictions, coefficients, | |
1169 | (R)MSEP, R², and correlation loadings | |
1170 | @item formula interface, modelled after @code{lm()}, with methods for predict, | |
1171 | print, summary, plot, update, etc. | |
1172 | @item extraction functions for coefficients, scores, and loadings | |
1173 | @item MSEP, RMSEP, and R² estimates | |
1174 | @item multiplicative scatter correction (@dfn{MSC}) | |
1175 | @end itemize\n") | |
1176 | (license license:gpl2))) | |
1177 | ||
b55e64d4 TGR |
1178 | (define-public r-ps |
1179 | (package | |
1180 | (name "r-ps") | |
422dea17 | 1181 | (version "1.3.0") |
b55e64d4 TGR |
1182 | (source |
1183 | (origin | |
1184 | (method url-fetch) | |
1185 | (uri (cran-uri "ps" version)) | |
1186 | (sha256 | |
422dea17 | 1187 | (base32 "1lcq7r0q4jb8x6k023zr2ydj2dg925bqqbkhx1phpnyjrk897498")))) |
b55e64d4 TGR |
1188 | (build-system r-build-system) |
1189 | (home-page "http://ps.r-lib.org") | |
1190 | (synopsis "List, query, and manipulate system processes") | |
1191 | (description | |
1192 | "The ps package implements an API to list, query, and manipulate system | |
1193 | processes. Most of its code is based on the @code{psutil} Python package.") | |
1194 | (license license:bsd-3))) | |
1195 | ||
4f8247b5 RW |
1196 | (define-public r-pkgbuild |
1197 | (package | |
1198 | (name "r-pkgbuild") | |
2657e666 | 1199 | (version "1.0.2") |
4f8247b5 RW |
1200 | (source |
1201 | (origin | |
1202 | (method url-fetch) | |
1203 | (uri (cran-uri "pkgbuild" version)) | |
1204 | (sha256 | |
1205 | (base32 | |
2657e666 | 1206 | "1i1rrax7x7r2bplig5cfc50lx85jc4n9a3qmvbdviaj22wr2lghs")))) |
4f8247b5 RW |
1207 | (build-system r-build-system) |
1208 | (propagated-inputs | |
1209 | `(("r-callr" ,r-callr) | |
2657e666 | 1210 | ("r-cli" ,r-cli) |
4f8247b5 RW |
1211 | ("r-crayon" ,r-crayon) |
1212 | ("r-desc" ,r-desc) | |
2657e666 | 1213 | ("r-prettyunits" ,r-prettyunits) |
4f8247b5 RW |
1214 | ("r-r6" ,r-r6) |
1215 | ("r-rprojroot" ,r-rprojroot) | |
1216 | ("r-withr" ,r-withr))) | |
1217 | (home-page "https://github.com/r-pkgs/pkgbuild") | |
1218 | (synopsis "Find tools needed to build R packages") | |
1219 | (description | |
1220 | "This package provides functions used to build R packages. It locates | |
1221 | compilers needed to build R packages on various platforms and ensures the PATH | |
1222 | is configured appropriately so R can use them.") | |
1223 | (license license:gpl3))) | |
1224 | ||
e362be8e RW |
1225 | (define-public r-pkgload |
1226 | (package | |
1227 | (name "r-pkgload") | |
65dd0e67 | 1228 | (version "1.0.2") |
e362be8e RW |
1229 | (source |
1230 | (origin | |
1231 | (method url-fetch) | |
1232 | (uri (cran-uri "pkgload" version)) | |
1233 | (sha256 | |
1234 | (base32 | |
65dd0e67 | 1235 | "0z7jvharafahi2gv5547mk1n499isjzw06kfwymmxc0gd575d1ii")))) |
e362be8e RW |
1236 | (build-system r-build-system) |
1237 | (propagated-inputs | |
1238 | `(("r-desc" ,r-desc) | |
1239 | ("r-pkgbuild" ,r-pkgbuild) | |
1240 | ("r-rlang" ,r-rlang) | |
1241 | ("r-rprojroot" ,r-rprojroot) | |
1242 | ("r-rstudioapi" ,r-rstudioapi) | |
1243 | ("r-withr" ,r-withr))) | |
1244 | (home-page "https://github.com/r-lib/pkgload") | |
1245 | (synopsis "Simulate package installation and attach") | |
1246 | (description | |
1247 | "This package simulates the process of installing a package and then | |
1248 | attaching it. This is a key part of the @code{devtools} package as it allows | |
1249 | you to rapidly iterate while developing a package.") | |
1250 | (license license:gpl3))) | |
1251 | ||
a8cba9dd RW |
1252 | (define-public r-rcpp |
1253 | (package | |
1254 | (name "r-rcpp") | |
f87a18e6 | 1255 | (version "1.0.0") |
a8cba9dd RW |
1256 | (source |
1257 | (origin | |
1258 | (method url-fetch) | |
1259 | (uri (cran-uri "Rcpp" version)) | |
1260 | (sha256 | |
f87a18e6 | 1261 | (base32 "1hlbw4k79q9ich4w27b01gsvwrsnrflii8zjlcmgfzm1vpq8ndxp")))) |
a8cba9dd | 1262 | (build-system r-build-system) |
f87a18e6 RW |
1263 | (native-inputs |
1264 | `(("r-knitr" ,r-knitr))) ; for vignettes | |
a8cba9dd RW |
1265 | (home-page "http://www.rcpp.org") |
1266 | (synopsis "Seamless R and C++ integration") | |
1267 | (description | |
1268 | "The Rcpp package provides R functions as well as C++ classes which offer | |
1269 | a seamless integration of R and C++. Many R data types and objects can be | |
1270 | mapped back and forth to C++ equivalents which facilitates both writing of new | |
1271 | code as well as easier integration of third-party libraries. Documentation | |
1272 | about Rcpp is provided by several vignettes included in this package, via the | |
1273 | 'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel | |
1274 | and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see | |
1275 | 'citation(\"Rcpp\")' for details on these last two.") | |
1276 | (license license:gpl2+))) | |
eed58a08 RW |
1277 | |
1278 | (define-public r-bindr | |
1279 | (package | |
1280 | (name "r-bindr") | |
eb575e95 | 1281 | (version "0.1.1") |
eed58a08 RW |
1282 | (source |
1283 | (origin | |
1284 | (method url-fetch) | |
1285 | (uri (cran-uri "bindr" version)) | |
1286 | (sha256 | |
1287 | (base32 | |
eb575e95 | 1288 | "1l05fpk2yql3jka321c0bdgx6mqq9pvfrg2844lbjfpbgjkmqy3w")))) |
eed58a08 RW |
1289 | (build-system r-build-system) |
1290 | (home-page "https://github.com/krlmlr/bindr") | |
1291 | (synopsis "Parametrized active bindings") | |
1292 | (description | |
1293 | "This package provides a simple interface for creating active bindings | |
1294 | where the bound function accepts additional arguments.") | |
1295 | (license license:expat))) | |
4bb0b4cc RW |
1296 | |
1297 | (define-public r-bindrcpp | |
1298 | (package | |
1299 | (name "r-bindrcpp") | |
9f17c056 | 1300 | (version "0.2.2") |
4bb0b4cc RW |
1301 | (source |
1302 | (origin | |
1303 | (method url-fetch) | |
1304 | (uri (cran-uri "bindrcpp" version)) | |
1305 | (sha256 | |
1306 | (base32 | |
9f17c056 | 1307 | "0rz4ibjdjsxl99ff3ha79z7cnjmilx4rx58fk9kk7ld9xc4hf4s8")))) |
4bb0b4cc RW |
1308 | (build-system r-build-system) |
1309 | (propagated-inputs | |
1310 | `(("r-bindr" ,r-bindr) | |
1311 | ("r-plogr" ,r-plogr) | |
1312 | ("r-rcpp" ,r-rcpp))) | |
1313 | (home-page "https://github.com/krlmlr/bindrcpp") | |
1314 | (synopsis "Rcpp interface to active bindings") | |
1315 | (description | |
1316 | "This package provides an easy way to fill an environment with active | |
1317 | bindings that call a C++ function.") | |
1318 | (license license:expat))) | |
33ce12e2 RW |
1319 | |
1320 | (define-public r-auc | |
1321 | (package | |
1322 | (name "r-auc") | |
1323 | (version "0.3.0") | |
1324 | (source | |
1325 | (origin | |
1326 | (method url-fetch) | |
1327 | (uri (cran-uri "AUC" version)) | |
1328 | (sha256 | |
1329 | (base32 | |
1330 | "0ripcib2qz0m7rgr1kiz68nx8f6p408l1ww7j78ljqik7p3g41g7")))) | |
1331 | (properties `((upstream-name . "AUC"))) | |
1332 | (build-system r-build-system) | |
e9960d8c | 1333 | (home-page "https://cran.r-project.org/web/packages/AUC") |
33ce12e2 RW |
1334 | (synopsis "Compute the area under the curve of selected measures") |
1335 | (description | |
1336 | "This package includes functions to compute the area under the curve of | |
1337 | selected measures: the area under the sensitivity curve (AUSEC), the area | |
1338 | under the specificity curve (AUSPC), the area under the accuracy | |
1339 | curve (AUACC), and the area under the receiver operating characteristic | |
1340 | curve (AUROC). The curves can also be visualized. Support for partial areas | |
1341 | is provided.") | |
1342 | (license license:gpl2+))) | |
c69d27db RW |
1343 | |
1344 | (define-public r-calibrate | |
1345 | (package | |
1346 | (name "r-calibrate") | |
1347 | (version "1.7.2") | |
1348 | (source | |
1349 | (origin | |
1350 | (method url-fetch) | |
1351 | (uri (cran-uri "calibrate" version)) | |
1352 | (sha256 | |
1353 | (base32 | |
1354 | "010nb1nb9y7zhw2k6d2i2drwy5brp7b83mjj2w7i3wjp9xb6l1kq")))) | |
1355 | (build-system r-build-system) | |
1356 | (propagated-inputs | |
1357 | `(("r-mass" ,r-mass))) | |
e9960d8c | 1358 | (home-page "https://cran.r-project.org/web/packages/calibrate") |
c69d27db RW |
1359 | (synopsis "Calibration of scatterplot and biplot axes") |
1360 | (description | |
1361 | "This is a package for drawing calibrated scales with tick marks | |
1362 | on (non-orthogonal) variable vectors in scatterplots and biplots.") | |
1363 | (license license:gpl2))) | |
2bdb5c3f RW |
1364 | |
1365 | (define-public r-shape | |
1366 | (package | |
1367 | (name "r-shape") | |
fe5b8893 | 1368 | (version "1.4.4") |
2bdb5c3f RW |
1369 | (source |
1370 | (origin | |
1371 | (method url-fetch) | |
1372 | (uri (cran-uri "shape" version)) | |
1373 | (sha256 | |
1374 | (base32 | |
fe5b8893 | 1375 | "0hadk3mapkhbh8xjkiz52vxdagmmgvm15xwpzb90ikw4giyipjzl")))) |
2bdb5c3f | 1376 | (build-system r-build-system) |
e9960d8c | 1377 | (home-page "https://cran.r-project.org/web/packages/shape") |
2bdb5c3f RW |
1378 | (synopsis "Functions for plotting graphical shapes") |
1379 | (description | |
1380 | "This package provides functions for plotting graphical shapes such as | |
1381 | ellipses, circles, cylinders, arrows, ...") | |
1382 | (license license:gpl3+))) | |
4847a62e RW |
1383 | |
1384 | (define-public r-globaloptions | |
1385 | (package | |
1386 | (name "r-globaloptions") | |
693b4d0b | 1387 | (version "0.1.0") |
4847a62e RW |
1388 | (source |
1389 | (origin | |
1390 | (method url-fetch) | |
1391 | (uri (cran-uri "GlobalOptions" version)) | |
1392 | (sha256 | |
1393 | (base32 | |
693b4d0b | 1394 | "1wlyqz1yhmhjwslrd7q69jbd9vsbjkjfc01g60kl3cdpyr8hlyjn")))) |
4847a62e RW |
1395 | (properties `((upstream-name . "GlobalOptions"))) |
1396 | (build-system r-build-system) | |
1397 | (home-page "https://github.com/jokergoo/GlobalOptions") | |
1398 | (synopsis "Generate functions to get or set global options") | |
1399 | (description | |
1400 | "This package provides more controls on the option values such as | |
1401 | validation and filtering on the values, making options invisible or private.") | |
1402 | (license license:gpl2+))) | |
2856369f RW |
1403 | |
1404 | (define-public r-circlize | |
1405 | (package | |
1406 | (name "r-circlize") | |
72c49875 | 1407 | (version "0.4.5") |
2856369f RW |
1408 | (source |
1409 | (origin | |
1410 | (method url-fetch) | |
1411 | (uri (cran-uri "circlize" version)) | |
1412 | (sha256 | |
1413 | (base32 | |
72c49875 | 1414 | "0qhn9jzw7gd0jp9rmqrlbmy5ql6hjsa68pkp0acfz1h215dl8ah9")))) |
2856369f RW |
1415 | (build-system r-build-system) |
1416 | (propagated-inputs | |
1417 | `(("r-colorspace" ,r-colorspace) | |
1418 | ("r-globaloptions" ,r-globaloptions) | |
1419 | ("r-shape" ,r-shape))) | |
1420 | (home-page "https://github.com/jokergoo/circlize") | |
1421 | (synopsis "Circular visualization") | |
1422 | (description | |
031462ba TGR |
1423 | "Circular layout is an efficient way to visualise huge amounts of |
1424 | information. This package provides an implementation of circular layout | |
1425 | generation in R as well as an enhancement of available software. Its | |
1426 | flexibility is based on the usage of low-level graphics functions such that | |
1427 | self-defined high-level graphics can be easily implemented by users for | |
1428 | specific purposes. Together with the seamless connection between the powerful | |
1429 | computational and visual environment in R, it gives users more convenience and | |
1430 | freedom to design figures for better understanding complex patterns behind | |
1431 | multi-dimensional data.") | |
2856369f | 1432 | (license license:gpl2+))) |
5cc79c9c RW |
1433 | |
1434 | (define-public r-powerlaw | |
1435 | (package | |
1436 | (name "r-powerlaw") | |
397dba01 | 1437 | (version "0.70.2") |
5cc79c9c RW |
1438 | (source |
1439 | (origin | |
1440 | (method url-fetch) | |
1441 | (uri (cran-uri "poweRlaw" version)) | |
1442 | (sha256 | |
1443 | (base32 | |
397dba01 | 1444 | "1asr6ikr7hmj78jyg8r1gwvcjg14addkxdiz92nh06lv71a183r4")))) |
5cc79c9c RW |
1445 | (properties `((upstream-name . "poweRlaw"))) |
1446 | (build-system r-build-system) | |
1447 | (propagated-inputs | |
1448 | `(("r-vgam" ,r-vgam))) | |
1449 | (home-page "https://github.com/csgillespie/poweRlaw") | |
1450 | (synopsis "Tools for the analysis of heavy tailed distributions") | |
1451 | (description | |
1452 | "This package provides an implementation of maximum likelihood estimators | |
1453 | for a variety of heavy tailed distributions, including both the discrete and | |
1454 | continuous power law distributions. Additionally, a goodness-of-fit based | |
1455 | approach is used to estimate the lower cut-off for the scaling region.") | |
1456 | ;; Any of these GPL versions. | |
1457 | (license (list license:gpl2 license:gpl3)))) | |
05486604 RW |
1458 | |
1459 | (define-public r-compare | |
1460 | (package | |
1461 | (name "r-compare") | |
1462 | (version "0.2-6") | |
1463 | (source | |
1464 | (origin | |
1465 | (method url-fetch) | |
1466 | (uri (cran-uri "compare" version)) | |
1467 | (sha256 | |
1468 | (base32 | |
1469 | "0k9zms930b5dz9gy8414li21wy0zg9x9vp7301v5cvyfi0g7xzgw")))) | |
1470 | (build-system r-build-system) | |
e9960d8c | 1471 | (home-page "https://cran.r-project.org/web/packages/compare") |
05486604 RW |
1472 | (synopsis "Comparing objects for differences") |
1473 | (description | |
1474 | "This package provides functions to compare a model object to a | |
1475 | comparison object. If the objects are not identical, the functions can be | |
1476 | instructed to explore various modifications of the objects (e.g., sorting | |
1477 | rows, dropping names) to see if the modified versions are identical.") | |
1478 | (license license:gpl2+))) | |
d3c67e1b RW |
1479 | |
1480 | (define-public r-dendextend | |
1481 | (package | |
1482 | (name "r-dendextend") | |
d42f7410 | 1483 | (version "1.9.0") |
d3c67e1b RW |
1484 | (source |
1485 | (origin | |
1486 | (method url-fetch) | |
1487 | (uri (cran-uri "dendextend" version)) | |
1488 | (sha256 | |
1489 | (base32 | |
d42f7410 | 1490 | "1jiani6zwfajky2vafvay2hq158nh99rdrk3j00lycspds9v35fd")))) |
d3c67e1b RW |
1491 | (build-system r-build-system) |
1492 | (propagated-inputs | |
1493 | `(("r-fpc" ,r-fpc) | |
1494 | ("r-ggplot2" ,r-ggplot2) | |
1495 | ("r-magrittr" ,r-magrittr) | |
1496 | ("r-viridis" ,r-viridis) | |
1497 | ("r-whisker" ,r-whisker))) | |
1498 | (home-page "https://cran.r-project.org/web/packages/dendextend") | |
1499 | (synopsis "Extending 'dendrogram' functionality in R") | |
1500 | (description | |
1501 | "This package offers a set of functions for extending @code{dendrogram} | |
1502 | objects in R, letting you visualize and compare trees of hierarchical | |
1503 | clusterings. You can adjust a tree's graphical parameters (the color, size, | |
1504 | type, etc of its branches, nodes and labels) and visually and statistically | |
1505 | compare different dendrograms to one another.") | |
1506 | ;; Any of these versions | |
1507 | (license (list license:gpl2 license:gpl3)))) | |
e0268ff2 RW |
1508 | |
1509 | (define-public r-getoptlong | |
1510 | (package | |
1511 | (name "r-getoptlong") | |
5fa9be11 | 1512 | (version "0.1.7") |
e0268ff2 RW |
1513 | (source |
1514 | (origin | |
1515 | (method url-fetch) | |
1516 | (uri (cran-uri "GetoptLong" version)) | |
1517 | (sha256 | |
1518 | (base32 | |
5fa9be11 | 1519 | "1fl3w2n602ldybc5qj7qw4xmzzb804bsjkqwf6dswzj0vf0qiadr")))) |
e0268ff2 RW |
1520 | (properties `((upstream-name . "GetoptLong"))) |
1521 | (build-system r-build-system) | |
1522 | (inputs | |
1523 | `(("perl" ,perl))) | |
1524 | (propagated-inputs | |
1525 | `(("r-globaloptions" ,r-globaloptions) | |
1526 | ("r-rjson" ,r-rjson))) | |
1527 | (home-page "https://github.com/jokergoo/GetoptLong") | |
1528 | (synopsis "Parsing command-line arguments and variable interpolation") | |
1529 | (description | |
1530 | "This is yet another command-line argument parser which wraps the | |
1531 | powerful Perl module @code{Getopt::Long} and with some adaptation for easier | |
1532 | use in R. It also provides a simple way for variable interpolation in R.") | |
1533 | (license license:gpl2+))) | |
f2e974e1 RW |
1534 | |
1535 | (define-public r-fastmatch | |
1536 | (package | |
1537 | (name "r-fastmatch") | |
1538 | (version "1.1-0") | |
1539 | (source | |
1540 | (origin | |
1541 | (method url-fetch) | |
1542 | (uri (cran-uri "fastmatch" version)) | |
1543 | (sha256 | |
1544 | (base32 | |
1545 | "0z80jxkygmzn11sq0c2iz357s9bpki548lg926g85gldhfj1md90")))) | |
1546 | (build-system r-build-system) | |
1547 | (home-page "http://www.rforge.net/fastmatch") | |
1548 | (synopsis "Fast match function") | |
1549 | (description | |
1550 | "This package provides a fast @code{match} replacement for cases that | |
1551 | require repeated look-ups. It is slightly faster that R's built-in | |
1552 | @code{match} function on first match against a table, but extremely fast on | |
1553 | any subsequent lookup as it keeps the hash table in memory.") | |
1554 | (license license:gpl2))) | |
a7f0faa2 RW |
1555 | |
1556 | (define-public r-ff | |
1557 | (package | |
1558 | (name "r-ff") | |
207c497e | 1559 | (version "2.2-14") |
a7f0faa2 RW |
1560 | (source |
1561 | (origin | |
1562 | (method url-fetch) | |
1563 | (uri (cran-uri "ff" version)) | |
1564 | (sha256 | |
1565 | (base32 | |
207c497e | 1566 | "1w724q4jpzbvzpilb2ifviaxkjgk9lzwxz9gksnvicbmfa20fqqw")))) |
a7f0faa2 RW |
1567 | (build-system r-build-system) |
1568 | (propagated-inputs `(("r-bit" ,r-bit))) | |
1569 | (home-page "http://ff.r-forge.r-project.org/") | |
1570 | (synopsis "Memory-efficient storage of large data on disk and access functions") | |
1571 | (description | |
1572 | "This package provides data structures that are stored on disk but | |
1573 | behave (almost) as if they were in RAM by transparently mapping only a section | |
1574 | in main memory.") | |
a6e67d86 EF |
1575 | ;; error Architecture not supported. |
1576 | (supported-systems (delete "aarch64-linux" %supported-systems)) | |
a7f0faa2 | 1577 | (license license:gpl2))) |
49c9c297 RW |
1578 | |
1579 | (define-public r-ffbase | |
1580 | (package | |
1581 | (name "r-ffbase") | |
ec0ee085 | 1582 | (version "0.12.7") |
49c9c297 RW |
1583 | (source |
1584 | (origin | |
1585 | (method url-fetch) | |
1586 | (uri (cran-uri "ffbase" version)) | |
1587 | (sha256 | |
1588 | (base32 | |
ec0ee085 | 1589 | "04kxx2f3f0743c5nvpb7x1x0pcd220dazpd5ag1pidxbz3xa85nw")))) |
49c9c297 RW |
1590 | (build-system r-build-system) |
1591 | (propagated-inputs | |
1592 | `(("r-bit" ,r-bit) | |
1593 | ("r-fastmatch" ,r-fastmatch) | |
1594 | ("r-ff" ,r-ff))) | |
1595 | (home-page "http://github.com/edwindj/ffbase") | |
1596 | (synopsis "Basic statistical functions for package 'ff'") | |
1597 | (description | |
1598 | "This package extends the out of memory vectors of @code{ff} with | |
1599 | statistical functions and other utilities to ease their usage.") | |
1600 | (license license:gpl3))) | |
18a16ceb RW |
1601 | |
1602 | (define-public r-prettyunits | |
1603 | (package | |
1604 | (name "r-prettyunits") | |
1605 | (version "1.0.2") | |
1606 | (source | |
1607 | (origin | |
1608 | (method url-fetch) | |
1609 | (uri (cran-uri "prettyunits" version)) | |
1610 | (sha256 | |
1611 | (base32 | |
1612 | "0p3z42hnk53x7ky4d1dr2brf7p8gv3agxr71i99m01n2hq2ri91m")))) | |
1613 | (build-system r-build-system) | |
1614 | (propagated-inputs | |
1615 | `(("r-assertthat" ,r-assertthat) | |
1616 | ("r-magrittr" ,r-magrittr))) | |
1617 | (home-page "https://github.com/gaborcsardi/prettyunits") | |
1618 | (synopsis "Pretty, human readable formatting of quantities") | |
1619 | (description | |
1620 | "This package provides tools for pretty, human readable formatting of | |
1621 | quantities.") | |
1622 | (license license:expat))) | |
71be51d5 RW |
1623 | |
1624 | (define-public r-reshape | |
1625 | (package | |
1626 | (name "r-reshape") | |
2b8126a4 | 1627 | (version "0.8.8") |
71be51d5 RW |
1628 | (source |
1629 | (origin | |
1630 | (method url-fetch) | |
1631 | (uri (cran-uri "reshape" version)) | |
1632 | (sha256 | |
1633 | (base32 | |
2b8126a4 | 1634 | "0s6i0sqxg1vldxs6miv8mi0zydxbqzgpmzfiwkj8y7jix3yrfmad")))) |
71be51d5 RW |
1635 | (build-system r-build-system) |
1636 | (propagated-inputs | |
1637 | `(("r-plyr" ,r-plyr) | |
1638 | ("r-rcpp" ,r-rcpp))) | |
1639 | (home-page "http://had.co.nz/reshape") | |
1640 | (synopsis "Flexibly reshape data") | |
1641 | (description | |
1642 | "Flexibly restructure and aggregate data using just two functions: | |
1643 | @code{melt} and @code{cast}. This package provides them.") | |
1644 | (license license:expat))) | |
c9c6f4b5 RW |
1645 | |
1646 | (define-public r-progress | |
1647 | (package | |
1648 | (name "r-progress") | |
9de9dcd9 | 1649 | (version "1.2.0") |
c9c6f4b5 RW |
1650 | (source |
1651 | (origin | |
1652 | (method url-fetch) | |
1653 | (uri (cran-uri "progress" version)) | |
1654 | (sha256 | |
1655 | (base32 | |
9de9dcd9 | 1656 | "1rhwm0bdw30z3rvl0bn56xprjl3zrdy7150w4gl4bkvn2d6h9fav")))) |
c9c6f4b5 RW |
1657 | (build-system r-build-system) |
1658 | (propagated-inputs | |
9de9dcd9 RW |
1659 | `(("r-crayon" ,r-crayon) |
1660 | ("r-hms" ,r-hms) | |
1661 | ("r-prettyunits" ,r-prettyunits) | |
c9c6f4b5 RW |
1662 | ("r-r6" ,r-r6))) |
1663 | (home-page "https://github.com/gaborcsardi/progress") | |
1664 | (synopsis "Terminal progress bars") | |
1665 | (description | |
1666 | "This package provides configurable progress bars. They may include | |
1667 | percentage, elapsed time, and/or the estimated completion time. They work in | |
1668 | terminals, in Emacs ESS, RStudio, Windows Rgui, and the macOS R.app. The | |
1669 | package also provides a C++ API, that works with or without Rcpp.") | |
1670 | (license license:expat))) | |
ac840207 RW |
1671 | |
1672 | (define-public r-ggally | |
1673 | (package | |
1674 | (name "r-ggally") | |
9944399a | 1675 | (version "1.4.0") |
ac840207 RW |
1676 | (source |
1677 | (origin | |
1678 | (method url-fetch) | |
1679 | (uri (cran-uri "GGally" version)) | |
1680 | (sha256 | |
1681 | (base32 | |
9944399a | 1682 | "1zjmcc5bzagvy7c5cmdcl39xmx07fwi98yrj4i05w7y40kqcsiws")))) |
ac840207 RW |
1683 | (properties `((upstream-name . "GGally"))) |
1684 | (build-system r-build-system) | |
9944399a RW |
1685 | (inputs |
1686 | `(("libressl" ,libressl))) | |
ac840207 RW |
1687 | (propagated-inputs |
1688 | `(("r-ggplot2" ,r-ggplot2) | |
1689 | ("r-gtable" ,r-gtable) | |
1690 | ("r-plyr" ,r-plyr) | |
1691 | ("r-progress" ,r-progress) | |
1692 | ("r-rcolorbrewer" ,r-rcolorbrewer) | |
9944399a RW |
1693 | ("r-reshape" ,r-reshape) |
1694 | ("r-rlang" ,r-rlang))) | |
ac840207 RW |
1695 | (home-page "https://ggobi.github.io/ggally") |
1696 | (synopsis "Extension to ggplot2") | |
1697 | (description | |
1698 | "The R package ggplot2 is a plotting system based on the grammar of | |
1699 | graphics. GGally extends ggplot2 by adding several functions to reduce the | |
1700 | complexity of combining geometric objects with transformed data. Some of | |
1701 | these functions include a pairwise plot matrix, a two group pairwise plot | |
1702 | matrix, a parallel coordinates plot, a survival plot, and several functions to | |
1703 | plot networks.") | |
1704 | (license license:gpl2+))) | |
3349faec RW |
1705 | |
1706 | (define-public r-proxy | |
1707 | (package | |
1708 | (name "r-proxy") | |
e7c4ad7d | 1709 | (version "0.4-22") |
3349faec RW |
1710 | (source |
1711 | (origin | |
1712 | (method url-fetch) | |
1713 | (uri (cran-uri "proxy" version)) | |
1714 | (sha256 | |
1715 | (base32 | |
e7c4ad7d | 1716 | "0l0ff8irmmvic941is290hd5vszyhaj5nfwna4v3w9c1zk5nr1ma")))) |
3349faec | 1717 | (build-system r-build-system) |
e9960d8c | 1718 | (home-page "https://cran.r-project.org/web/packages/proxy") |
3349faec RW |
1719 | (synopsis "Distance and similarity measures") |
1720 | (description | |
1721 | "This package provides an extensible framework for the efficient | |
1722 | calculation of auto- and cross-proximities, along with implementations of the | |
1723 | most popular ones.") | |
1724 | (license license:gpl2))) | |
bc0081e7 RW |
1725 | |
1726 | (define-public r-sp | |
1727 | (package | |
1728 | (name "r-sp") | |
d87130cb | 1729 | (version "1.3-1") |
bc0081e7 RW |
1730 | (source |
1731 | (origin | |
1732 | (method url-fetch) | |
1733 | (uri (cran-uri "sp" version)) | |
1734 | (sha256 | |
1735 | (base32 | |
d87130cb | 1736 | "17xm1ig80p9wc860hm3bgishz6lj9fxgwqidj7rkbk4ap99qp62p")))) |
bc0081e7 RW |
1737 | (build-system r-build-system) |
1738 | (propagated-inputs | |
1739 | `(("r-lattice" ,r-lattice))) | |
e9960d8c | 1740 | (home-page "https://cran.r-project.org/web/packages/sp") |
bc0081e7 RW |
1741 | (synopsis "Classes and methods for spatial data") |
1742 | (description | |
1743 | "This package provides classes and methods for spatial data; the classes | |
1744 | document where the spatial location information resides, for 2D or 3D data. | |
1745 | Utility functions are provided, e.g. for plotting data as maps, spatial | |
1746 | selection, as well as methods for retrieving coordinates, for subsetting, | |
1747 | print, summary, etc.") | |
1748 | (license license:gpl2+))) | |
e389d10f RW |
1749 | |
1750 | (define-public r-rmtstat | |
1751 | (package | |
1752 | (name "r-rmtstat") | |
1753 | (version "0.3") | |
1754 | (source | |
1755 | (origin | |
1756 | (method url-fetch) | |
1757 | (uri (cran-uri "RMTstat" version)) | |
1758 | (sha256 | |
1759 | (base32 | |
1760 | "1nn25q4kmh9kj975sxkrpa97vh5irqrlqhwsfinbck6h6ia4rsw1")))) | |
1761 | (properties `((upstream-name . "RMTstat"))) | |
1762 | (build-system r-build-system) | |
e9960d8c | 1763 | (home-page "https://cran.r-project.org/web/packages/RMTstat") |
e389d10f RW |
1764 | (synopsis "Distributions, statistics and tests derived from random matrix theory") |
1765 | (description | |
1766 | "This package provides functions for working with the Tracy-Widom laws | |
1767 | and other distributions related to the eigenvalues of large Wishart | |
1768 | matrices.") | |
1769 | (license license:bsd-3))) | |
6427e620 | 1770 | |
94989d4b RJ |
1771 | (define-public r-rmpi |
1772 | (package | |
1773 | (name "r-rmpi") | |
5e8282a4 | 1774 | (version "0.6-9") |
94989d4b RJ |
1775 | (source (origin |
1776 | (method url-fetch) | |
1777 | (uri (cran-uri "Rmpi" version)) | |
1778 | (sha256 | |
1779 | (base32 | |
5e8282a4 | 1780 | "1rhycla98hxgnnxlxxldr1x51djak7c2jjvlrv3jcsvgwp1ymqdj")))) |
94989d4b RJ |
1781 | (properties `((upstream-name . "Rmpi"))) |
1782 | (build-system r-build-system) | |
1783 | (arguments | |
1784 | `(#:configure-flags '("--configure-args=\"--with-Rmpi-type=OPENMPI\""))) | |
1785 | (inputs | |
1786 | `(("openmpi" ,openmpi))) | |
9ebfdcd3 RW |
1787 | (native-inputs |
1788 | `(("pkg-config" ,pkg-config))) | |
94989d4b RJ |
1789 | (home-page "http://www.stats.uwo.ca/faculty/yu/Rmpi") |
1790 | (synopsis "R interface to message-passing interface (MPI)") | |
1791 | (description | |
1792 | "This package provides an interface (wrapper) to MPI APIs. It also | |
1793 | provides an interactive R manager and worker environment.") | |
1794 | (license license:gpl2+))) | |
1795 | ||
6427e620 RW |
1796 | (define-public r-lmoments |
1797 | (package | |
1798 | (name "r-lmoments") | |
1799 | (version "1.2-3") | |
1800 | (source | |
1801 | (origin | |
1802 | (method url-fetch) | |
1803 | (uri (cran-uri "Lmoments" version)) | |
1804 | (sha256 | |
1805 | (base32 | |
1806 | "13p0r4w16jvjnyjmkhkp3dwdfr1gap2l0k4k5jy41m8nc5fvcx79")))) | |
1807 | (properties `((upstream-name . "Lmoments"))) | |
1808 | (build-system r-build-system) | |
1809 | (home-page "http://www.tilastotiede.fi/juha_karvanen.html") | |
1810 | (synopsis "L-moments and quantile mixtures") | |
1811 | (description | |
1812 | "This package contains functions to estimate L-moments and trimmed | |
1813 | L-moments from the data. It also contains functions to estimate the | |
1814 | parameters of the normal polynomial quantile mixture and the Cauchy polynomial | |
1815 | quantile mixture from L-moments and trimmed L-moments.") | |
1816 | (license license:gpl2))) | |
28476b4b RW |
1817 | |
1818 | (define-public r-distillery | |
1819 | (package | |
1820 | (name "r-distillery") | |
28f2f893 | 1821 | (version "1.0-4") |
28476b4b RW |
1822 | (source |
1823 | (origin | |
1824 | (method url-fetch) | |
1825 | (uri (cran-uri "distillery" version)) | |
1826 | (sha256 | |
1827 | (base32 | |
28f2f893 | 1828 | "1m0pgmlvk7bsb6q3kxagnq422babk61sf73naavac68v8x2q8fix")))) |
28476b4b RW |
1829 | (build-system r-build-system) |
1830 | (home-page "http://www.ral.ucar.edu/staff/ericg") | |
1831 | (synopsis "Functions for confidence intervals and object information") | |
1832 | (description | |
1833 | "This package provides some very simple method functions for confidence | |
1834 | interval calculation and to distill pertinent information from a potentially | |
1835 | complex object; primarily used in common with the packages extRemes and | |
1836 | SpatialVx.") | |
1837 | (license license:gpl2+))) | |
58db98c9 RW |
1838 | |
1839 | (define-public r-extremes | |
1840 | (package | |
1841 | (name "r-extremes") | |
a151f1e6 | 1842 | (version "2.0-9") |
58db98c9 RW |
1843 | (source |
1844 | (origin | |
1845 | (method url-fetch) | |
1846 | (uri (cran-uri "extRemes" version)) | |
1847 | (sha256 | |
1848 | (base32 | |
a151f1e6 | 1849 | "0cpvcajk9xyy7662nqkyx333vrxpwsc5nmv0bfnhsbgijz5y0hvm")))) |
58db98c9 RW |
1850 | (properties `((upstream-name . "extRemes"))) |
1851 | (build-system r-build-system) | |
1852 | (propagated-inputs | |
1853 | `(("r-car" ,r-car) | |
1854 | ("r-distillery" ,r-distillery) | |
1855 | ("r-lmoments" ,r-lmoments))) | |
1856 | (home-page "http://www.assessment.ucar.edu/toolkit/") | |
1857 | (synopsis "Extreme value analysis") | |
1858 | (description | |
1859 | "ExtRemes is a suite of functions for carrying out analyses on the | |
1860 | extreme values of a process of interest; be they block maxima over long blocks | |
1861 | or excesses over a high threshold.") | |
1862 | (license license:gpl2+))) | |
062b6dbd RW |
1863 | |
1864 | (define-public r-lmtest | |
1865 | (package | |
1866 | (name "r-lmtest") | |
ba578d93 | 1867 | (version "0.9-36") |
062b6dbd RW |
1868 | (source |
1869 | (origin | |
1870 | (method url-fetch) | |
1871 | (uri (cran-uri "lmtest" version)) | |
1872 | (sha256 | |
1873 | (base32 | |
ba578d93 | 1874 | "0sym9sm1vl6bbgq01jhz1plxqmgh8hrgrn7rw0mwvsalcn6id7xy")))) |
062b6dbd RW |
1875 | (build-system r-build-system) |
1876 | (propagated-inputs | |
1877 | `(("r-zoo" ,r-zoo))) | |
1878 | (native-inputs | |
1879 | `(("gfortran" ,gfortran))) | |
e9960d8c | 1880 | (home-page "https://cran.r-project.org/web/packages/lmtest") |
062b6dbd RW |
1881 | (synopsis "Testing linear regression models") |
1882 | (description | |
1883 | "This package provides a collection of tests, data sets, and examples for | |
1884 | diagnostic checking in linear regression models. Furthermore, some generic | |
1885 | tools for inference in parametric models are provided.") | |
1886 | ;; Either version is okay | |
1887 | (license (list license:gpl2 license:gpl3)))) | |
d6b156dc | 1888 | |
c974008d RJ |
1889 | (define-public r-idr |
1890 | (package | |
1891 | (name "r-idr") | |
1892 | (version "1.2") | |
1893 | (source (origin | |
1894 | (method url-fetch) | |
1895 | (uri (cran-uri "idr" version)) | |
1896 | (sha256 | |
1897 | (base32 | |
1898 | "05nvgw1xdg670bsjjrxkgd1mrdkciccpw4krn0zcgdf2r21dzgwb")))) | |
1899 | (build-system r-build-system) | |
1900 | (home-page "https://cran.r-project.org/web/packages/idr/") | |
1901 | (synopsis "Irreproducible discovery rate") | |
1902 | (description | |
1903 | "This is a package for estimating the copula mixture model and plotting | |
1904 | correspondence curves in \"Measuring reproducibility of high-throughput | |
1905 | experiments\" (2011), Annals of Applied Statistics, Vol. 5, No. 3, 1752-1779, | |
1906 | by Li, Brown, Huang, and Bickel") | |
1907 | (license license:gpl2+))) | |
1908 | ||
d6b156dc RW |
1909 | (define-public r-inline |
1910 | (package | |
1911 | (name "r-inline") | |
0acbf8bb | 1912 | (version "0.3.15") |
d6b156dc RW |
1913 | (source (origin |
1914 | (method url-fetch) | |
1915 | (uri (cran-uri "inline" version)) | |
1916 | (sha256 | |
1917 | (base32 | |
0acbf8bb | 1918 | "0s4wssvpan189fijahknxq5s22ww9bzmdlmyhnra748r7khky17z")))) |
d6b156dc | 1919 | (build-system r-build-system) |
e9960d8c | 1920 | (home-page "https://cran.r-project.org/web/packages/inline") |
d6b156dc RW |
1921 | (synopsis "Functions to inline C, C++, Fortran function calls from R") |
1922 | (description | |
1923 | "This package provides functionality to dynamically define R functions | |
1924 | and S4 methods with inlined C, C++ or Fortran code supporting @code{.C} and | |
1925 | @code{.Call} calling conventions.") | |
1926 | ;; Any version of the LGPL. | |
1927 | (license license:lgpl3+))) | |
8c72b830 RW |
1928 | |
1929 | (define-public r-bbmle | |
1930 | (package | |
1931 | (name "r-bbmle") | |
84078220 | 1932 | (version "1.0.20") |
8c72b830 RW |
1933 | (source |
1934 | (origin | |
1935 | (method url-fetch) | |
1936 | (uri (cran-uri "bbmle" version)) | |
1937 | (sha256 | |
1938 | (base32 | |
84078220 | 1939 | "1xzij7swrrzl5ly8l3lw6awh486zcm00251dwqws1y23fbgyh3vc")))) |
8c72b830 RW |
1940 | (build-system r-build-system) |
1941 | (propagated-inputs | |
1942 | `(("r-lattice" ,r-lattice) | |
1943 | ("r-mass" ,r-mass) | |
1944 | ("r-numderiv" ,r-numderiv))) | |
e9960d8c | 1945 | (home-page "https://cran.r-project.org/web/packages/bbmle") |
8c72b830 RW |
1946 | (synopsis "Tools for General Maximum Likelihood Estimation") |
1947 | (description | |
c151b0b6 RW |
1948 | "This package provides methods and functions for fitting maximum |
1949 | likelihood models in R. This package modifies and extends the @code{mle} | |
1950 | classes in the @code{stats4} package.") | |
8c72b830 | 1951 | ;; Any version of the GPL |
c151b0b6 | 1952 | (license license:gpl2+))) |
b31e4a96 RW |
1953 | |
1954 | (define-public r-emdbook | |
1955 | (package | |
1956 | (name "r-emdbook") | |
90f1ecb9 | 1957 | (version "1.3.10") |
b31e4a96 RW |
1958 | (source |
1959 | (origin | |
1960 | (method url-fetch) | |
1961 | (uri (cran-uri "emdbook" version)) | |
1962 | (sha256 | |
1963 | (base32 | |
90f1ecb9 | 1964 | "0880cx6rqm9vgd2zxnd2k0igfl80gy7ak15w36clwlzavab59hmv")))) |
b31e4a96 RW |
1965 | (build-system r-build-system) |
1966 | (propagated-inputs | |
1967 | `(("r-bbmle" ,r-bbmle) | |
1968 | ("r-coda" ,r-coda) | |
1969 | ("r-lattice" ,r-lattice) | |
1970 | ("r-mass" ,r-mass) | |
1971 | ("r-plyr" ,r-plyr) | |
1972 | ("r-rcpp" ,r-rcpp))) | |
1973 | (home-page "http://www.math.mcmaster.ca/bolker/emdbook") | |
1974 | (synopsis "Support functions and data for \"Ecological Models and Data\"") | |
1975 | (description | |
1976 | "This package provides auxiliary functions and data sets for \"Ecological | |
1977 | Models and Data\", a book presenting maximum likelihood estimation and related | |
1978 | topics for ecologists (ISBN 978-0-691-12522-0).") | |
1979 | ;; Any GPL version | |
1980 | (license (list license:gpl2 license:gpl3)))) | |
a3e36d37 RW |
1981 | |
1982 | (define-public r-lpsolve | |
1983 | (package | |
1984 | (name "r-lpsolve") | |
1985 | (version "5.6.13") | |
1986 | (source | |
1987 | (origin | |
1988 | (method url-fetch) | |
1989 | (uri (cran-uri "lpSolve" version)) | |
1990 | (sha256 | |
1991 | (base32 | |
1992 | "13a9ry8xf5j1f2j6imqrxdgxqz3nqp9sj9b4ivyx9sid459irm6m")))) | |
1993 | (properties `((upstream-name . "lpSolve"))) | |
1994 | (build-system r-build-system) | |
e9960d8c | 1995 | (home-page "https://cran.r-project.org/web/packages/lpSolve") |
a3e36d37 RW |
1996 | (synopsis "R interface to Lp_solve to solve linear/integer programs") |
1997 | (description | |
1998 | "Lp_solve is software for solving linear, integer and mixed integer | |
1999 | programs. This implementation supplies a \"wrapper\" function in C and some R | |
2000 | functions that solve general linear/integer problems, assignment problems, and | |
2001 | transportation problems.") | |
2002 | (license license:lgpl2.0))) | |
521e0703 RW |
2003 | |
2004 | (define-public r-limsolve | |
2005 | (package | |
2006 | (name "r-limsolve") | |
2007 | (version "1.5.5.3") | |
2008 | (source | |
2009 | (origin | |
2010 | (method url-fetch) | |
2011 | (uri (cran-uri "limSolve" version)) | |
2012 | (sha256 | |
2013 | (base32 | |
2014 | "1ll6ir42h3g2fzf0wqai213bm82gpwjj2hfma2np3mz024sc09rg")))) | |
2015 | (properties `((upstream-name . "limSolve"))) | |
2016 | (build-system r-build-system) | |
2017 | (propagated-inputs | |
2018 | `(("r-lpsolve" ,r-lpsolve) | |
2019 | ("r-mass" ,r-mass) | |
2020 | ("r-quadprog" ,r-quadprog))) | |
2021 | (native-inputs `(("gfortran" ,gfortran))) | |
e9960d8c | 2022 | (home-page "https://cran.r-project.org/web/packages/limSolve") |
521e0703 RW |
2023 | (synopsis "Solving linear inverse models") |
2024 | (description | |
2025 | "This package provides functions that: | |
2026 | ||
2027 | @enumerate | |
2028 | @item find the minimum/maximum of a linear or quadratic function, | |
2029 | @item sample an underdetermined or overdetermined system, | |
2030 | @item solve a linear system Ax=B for the unknown x. | |
2031 | @end enumerate | |
2032 | ||
2033 | It includes banded and tridiagonal linear systems. The package calls Fortran | |
2034 | functions from LINPACK.") | |
2035 | ;; Any GPL version. | |
2036 | (license (list license:gpl2+ license:gpl3+)))) | |
6b4a9aec RW |
2037 | |
2038 | (define-public r-fitdistrplus | |
2039 | (package | |
2040 | (name "r-fitdistrplus") | |
8c456dff | 2041 | (version "1.0-11") |
6b4a9aec RW |
2042 | (source |
2043 | (origin | |
2044 | (method url-fetch) | |
2045 | (uri (cran-uri "fitdistrplus" version)) | |
2046 | (sha256 | |
2047 | (base32 | |
8c456dff | 2048 | "12hckg3y5j3zh9q1gwxkc27q813p2r42iqp7wdfiq6nj55jrh6w6")))) |
6b4a9aec RW |
2049 | (build-system r-build-system) |
2050 | (propagated-inputs | |
2051 | `(("r-mass" ,r-mass) | |
8c456dff | 2052 | ("r-npsurv" ,r-npsurv) |
6b4a9aec RW |
2053 | ("r-survival" ,r-survival))) |
2054 | (home-page "http://riskassessment.r-forge.r-project.org") | |
2055 | (synopsis "Fitting a parametric distribution from data") | |
2056 | (description | |
2057 | "This package extends the @code{fitdistr} function of the MASS package | |
2058 | with several functions to help the fit of a parametric distribution to | |
2059 | non-censored or censored data. Censored data may contain left-censored, | |
2060 | right-censored and interval-censored values, with several lower and upper | |
2061 | bounds. In addition to @dfn{maximum likelihood estimation} (MLE), the package | |
2062 | provides moment matching (MME), quantile matching (QME) and maximum | |
2063 | goodness-of-fit estimation (MGE) methods (available only for non-censored | |
2064 | data). Weighted versions of MLE, MME and QME are available.") | |
2065 | (license license:gpl2+))) | |
8d220073 RW |
2066 | |
2067 | (define-public r-energy | |
2068 | (package | |
2069 | (name "r-energy") | |
9c112bee | 2070 | (version "1.7-5") |
8d220073 RW |
2071 | (source |
2072 | (origin | |
2073 | (method url-fetch) | |
2074 | (uri (cran-uri "energy" version)) | |
2075 | (sha256 | |
2076 | (base32 | |
9c112bee | 2077 | "15k9dg0a82cs9ypm0wpcsff3il1hzhnnv86dv5ngby1r144czhi4")))) |
8d220073 RW |
2078 | (build-system r-build-system) |
2079 | (propagated-inputs | |
2080 | `(("r-boot" ,r-boot) | |
2081 | ("r-rcpp" ,r-rcpp))) | |
e9960d8c | 2082 | (home-page "https://cran.r-project.org/web/packages/energy") |
8d220073 RW |
2083 | (synopsis "Multivariate inference via the energy of data") |
2084 | (description | |
2085 | "This package provides e-statistics (energy) tests and statistics for | |
2086 | multivariate and univariate inference, including distance correlation, | |
2087 | one-sample, two-sample, and multi-sample tests for comparing multivariate | |
2088 | distributions, are implemented. Measuring and testing multivariate | |
2089 | independence based on distance correlation, partial distance correlation, | |
2090 | multivariate goodness-of-fit tests, clustering based on energy distance, | |
2091 | testing for multivariate normality, distance components (disco) for | |
2092 | non-parametric analysis of structured data, and other energy | |
2093 | statistics/methods are implemented.") | |
2094 | (license license:gpl2+))) | |
abcb8494 RW |
2095 | |
2096 | (define-public r-suppdists | |
2097 | (package | |
2098 | (name "r-suppdists") | |
2099 | (version "1.1-9.4") | |
2100 | (source | |
2101 | (origin | |
2102 | (method url-fetch) | |
2103 | (uri (cran-uri "SuppDists" version)) | |
2104 | (sha256 | |
2105 | (base32 | |
2106 | "1ffx8wigqqvz2pnh06jjc0fnf4vq9z2rhwk2y3f9aszn18ap3dgw")))) | |
2107 | (properties `((upstream-name . "SuppDists"))) | |
2108 | (build-system r-build-system) | |
e9960d8c | 2109 | (home-page "https://cran.r-project.org/web/packages/SuppDists") |
abcb8494 RW |
2110 | (synopsis "Supplementary distributions") |
2111 | (description | |
2112 | "This package provides ten distributions supplementing those built into | |
2113 | R. Inverse Gauss, Kruskal-Wallis, Kendall's Tau, Friedman's chi squared, | |
2114 | Spearman's rho, maximum F ratio, the Pearson product moment correlation | |
2115 | coefficient, Johnson distributions, normal scores and generalized | |
2116 | hypergeometric distributions. In addition two random number generators of | |
2117 | George Marsaglia are included.") | |
2118 | (license license:gpl2+))) | |
05e8a3ef RW |
2119 | |
2120 | (define-public r-ksamples | |
2121 | (package | |
2122 | (name "r-ksamples") | |
c152c6b3 | 2123 | (version "1.2-8") |
05e8a3ef RW |
2124 | (source |
2125 | (origin | |
2126 | (method url-fetch) | |
2127 | (uri (cran-uri "kSamples" version)) | |
2128 | (sha256 | |
2129 | (base32 | |
c152c6b3 | 2130 | "15d5q5vpp4wx5rk5kjxjdxpwc8mkq5sbdz8gi07iscrvhzb5rzfr")))) |
05e8a3ef RW |
2131 | (properties `((upstream-name . "kSamples"))) |
2132 | (build-system r-build-system) | |
2133 | (propagated-inputs | |
2134 | `(("r-suppdists" ,r-suppdists))) | |
e9960d8c | 2135 | (home-page "https://cran.r-project.org/web/packages/kSamples") |
05e8a3ef RW |
2136 | (synopsis "K-Sample rank tests and their combinations") |
2137 | (description | |
2138 | "This package provides tools to compares k samples using the | |
2139 | Anderson-Darling test, Kruskal-Wallis type tests with different rank score | |
2140 | criteria, Steel's multiple comparison test, and the Jonckheere-Terpstra (JT) | |
2141 | test. It computes asymptotic, simulated or (limited) exact P-values, all | |
2142 | valid under randomization, with or without ties, or conditionally under random | |
2143 | sampling from populations, given the observed tie pattern. Except for Steel's | |
2144 | test and the JT test it also combines these tests across several blocks of | |
2145 | samples.") | |
2146 | (license license:gpl2+))) | |
f97ce815 RW |
2147 | |
2148 | (define-public r-cvst | |
2149 | (package | |
2150 | (name "r-cvst") | |
b13b5674 | 2151 | (version "0.2-2") |
f97ce815 RW |
2152 | (source |
2153 | (origin | |
2154 | (method url-fetch) | |
2155 | (uri (cran-uri "CVST" version)) | |
2156 | (sha256 | |
2157 | (base32 | |
b13b5674 | 2158 | "05l3yzkfrbds09ah9cdwn2sn4ryhq78lz33ryzrgkv176jc8qjw5")))) |
f97ce815 RW |
2159 | (properties `((upstream-name . "CVST"))) |
2160 | (build-system r-build-system) | |
2161 | (propagated-inputs | |
2162 | `(("r-kernlab" ,r-kernlab) | |
2163 | ("r-matrix" ,r-matrix))) | |
e9960d8c | 2164 | (home-page "https://cran.r-project.org/web/packages/CVST") |
f97ce815 RW |
2165 | (synopsis "Fast cross-validation via sequential testing") |
2166 | (description | |
2167 | "This package implements the fast cross-validation via sequential | |
2168 | testing (CVST) procedure. CVST is an improved cross-validation procedure | |
2169 | which uses non-parametric testing coupled with sequential analysis to | |
2170 | determine the best parameter set on linearly increasing subsets of the data. | |
2171 | Additionally to the CVST the package contains an implementation of the | |
2172 | ordinary k-fold cross-validation with a flexible and powerful set of helper | |
2173 | objects and methods to handle the overall model selection process. The | |
2174 | implementations of the Cochran's Q test with permutations and the sequential | |
2175 | testing framework of Wald are generic and can therefore also be used in other | |
2176 | contexts.") | |
2177 | (license license:gpl2+))) | |
797e1dfb | 2178 | |
c5f033e0 RW |
2179 | (define-public r-squarem |
2180 | (package | |
2181 | (name "r-squarem") | |
2182 | (version "2017.10-1") | |
2183 | (source | |
2184 | (origin | |
2185 | (method url-fetch) | |
2186 | (uri (cran-uri "SQUAREM" version)) | |
2187 | (sha256 | |
2188 | (base32 | |
2189 | "10xj26x7qjyvzndnbjl5krr9wabnb9cbrnp3m7xg673g8ddr12cv")))) | |
2190 | (properties `((upstream-name . "SQUAREM"))) | |
2191 | (build-system r-build-system) | |
2192 | (home-page "http://www.jhsph.edu/agingandhealth/People/Faculty_personal_pages/Varadhan.html") | |
2193 | (synopsis "Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms") | |
2194 | (description | |
2195 | "This package provides algorithms for accelerating the convergence of | |
2196 | slow, monotone sequences from smooth, contraction mapping such as the EM | |
2197 | algorithm. It can be used to accelerate any smooth, linearly convergent | |
2198 | acceleration scheme. A tutorial style introduction to this package is | |
2199 | available in a vignette.") | |
2200 | (license license:gpl2+))) | |
2201 | ||
797e1dfb RW |
2202 | (define-public r-lava |
2203 | (package | |
2204 | (name "r-lava") | |
8f887014 | 2205 | (version "1.6.4") |
797e1dfb RW |
2206 | (source |
2207 | (origin | |
2208 | (method url-fetch) | |
2209 | (uri (cran-uri "lava" version)) | |
2210 | (sha256 | |
2211 | (base32 | |
8f887014 | 2212 | "0627cjlg55kzbzcy82w6wykmw2i57qhgfcabn2zy3ydfdswyxij1")))) |
797e1dfb RW |
2213 | (build-system r-build-system) |
2214 | (propagated-inputs | |
2215 | `(("r-numderiv" ,r-numderiv) | |
92e4534c | 2216 | ("r-squarem" ,r-squarem) |
797e1dfb RW |
2217 | ("r-survival" ,r-survival))) |
2218 | (home-page "https://github.com/kkholst/lava") | |
2219 | (synopsis "Latent variable models") | |
2220 | (description | |
2221 | "This package provides tools for the estimation and simulation of latent | |
2222 | variable models.") | |
2223 | (license license:gpl3))) | |
d26b7c1b RW |
2224 | |
2225 | (define-public r-drr | |
2226 | (package | |
2227 | (name "r-drr") | |
0f001b3c | 2228 | (version "0.0.3") |
d26b7c1b RW |
2229 | (source |
2230 | (origin | |
2231 | (method url-fetch) | |
2232 | (uri (cran-uri "DRR" version)) | |
2233 | (sha256 | |
2234 | (base32 | |
0f001b3c | 2235 | "1yd1fvllfkcrwg9v322n4wkk4q4q84nvy58y4vac9pdr3yf3i4vl")))) |
d26b7c1b RW |
2236 | (properties `((upstream-name . "DRR"))) |
2237 | (build-system r-build-system) | |
2238 | (propagated-inputs | |
2239 | `(("r-cvst" ,r-cvst) | |
2240 | ("r-kernlab" ,r-kernlab) | |
2241 | ("r-matrix" ,r-matrix))) | |
e9960d8c | 2242 | (home-page "https://cran.r-project.org/web/packages/DRR") |
d26b7c1b RW |
2243 | (synopsis "Dimensionality reduction via regression") |
2244 | (description | |
2245 | "This package provides an implementation of dimensionality reduction via | |
2246 | regression using Kernel Ridge Regression.") | |
2247 | (license license:gpl3))) | |
9dd707f0 RW |
2248 | |
2249 | (define-public r-prodlim | |
2250 | (package | |
2251 | (name "r-prodlim") | |
9ee81a36 | 2252 | (version "2018.04.18") |
9dd707f0 RW |
2253 | (source |
2254 | (origin | |
2255 | (method url-fetch) | |
2256 | (uri (cran-uri "prodlim" version)) | |
2257 | (sha256 | |
2258 | (base32 | |
9ee81a36 | 2259 | "1aslq87sqwikh8chxc378r38146y7kv79zz0kcq3j93ivx7va8jb")))) |
9dd707f0 RW |
2260 | (build-system r-build-system) |
2261 | (propagated-inputs | |
2262 | `(("r-kernsmooth" ,r-kernsmooth) | |
2263 | ("r-lava" ,r-lava) | |
2264 | ("r-rcpp" ,r-rcpp) | |
2265 | ("r-survival" ,r-survival))) | |
e9960d8c | 2266 | (home-page "https://cran.r-project.org/web/packages/prodlim") |
9dd707f0 RW |
2267 | (synopsis "Product-limit estimation for censored event history analysis") |
2268 | (description | |
2269 | "This package provides a fast and user-friendly implementation of | |
2270 | nonparametric estimators for censored event history (survival) analysis with | |
2271 | the Kaplan-Meier and Aalen-Johansen methods.") | |
2272 | (license license:gpl2+))) | |
b561f563 RW |
2273 | |
2274 | (define-public r-dimred | |
2275 | (package | |
2276 | (name "r-dimred") | |
e21659c7 | 2277 | (version "0.2.2") |
b561f563 RW |
2278 | (source |
2279 | (origin | |
2280 | (method url-fetch) | |
2281 | (uri (cran-uri "dimRed" version)) | |
2282 | (sha256 | |
2283 | (base32 | |
e21659c7 | 2284 | "0ssy2qriiy6zdawriqcbl67qiq68ipml3frq7aqlq70r2fqyyw48")))) |
b561f563 RW |
2285 | (properties `((upstream-name . "dimRed"))) |
2286 | (build-system r-build-system) | |
77f97229 RW |
2287 | (propagated-inputs |
2288 | `(("r-drr" ,r-drr) | |
2289 | ("r-magrittr" ,r-magrittr))) | |
b561f563 RW |
2290 | (home-page "https://github.com/gdkrmr/dimRed") |
2291 | (synopsis "Framework for dimensionality reduction") | |
2292 | (description | |
2293 | "This package provides a collection of dimensionality reduction | |
2294 | techniques from R packages and provides a common interface for calling the | |
2295 | methods.") | |
2296 | (license license:gpl3))) | |
1b663184 RW |
2297 | |
2298 | (define-public r-timedate | |
2299 | (package | |
2300 | (name "r-timedate") | |
51b7b0e3 | 2301 | (version "3043.102") |
1b663184 RW |
2302 | (source |
2303 | (origin | |
2304 | (method url-fetch) | |
2305 | (uri (cran-uri "timeDate" version)) | |
2306 | (sha256 | |
2307 | (base32 | |
51b7b0e3 | 2308 | "0wvl5pq261rvbgly7vilk3x3m9xk3ly6il1i5scwdf6srl1vlz1p")))) |
1b663184 RW |
2309 | (properties `((upstream-name . "timeDate"))) |
2310 | (build-system r-build-system) | |
2311 | (home-page "https://www.rmetrics.org") | |
2312 | (synopsis "Chronological and calendar objects") | |
2313 | (description | |
2314 | "This package provides an environment for teaching \"Financial | |
2315 | Engineering and Computational Finance\" and for managing chronological and | |
2316 | calendar objects.") | |
2317 | (license license:gpl2+))) | |
f57b883e | 2318 | |
ce4e81cb RW |
2319 | (define-public r-magic |
2320 | (package | |
2321 | (name "r-magic") | |
bba80fad | 2322 | (version "1.5-9") |
ce4e81cb RW |
2323 | (source |
2324 | (origin | |
2325 | (method url-fetch) | |
2326 | (uri (cran-uri "magic" version)) | |
2327 | (sha256 | |
2328 | (base32 | |
bba80fad | 2329 | "0snmdh6vk0p6ar1swsihisinxrx7l8371dri5lk0z24ysgr5w7gs")))) |
ce4e81cb RW |
2330 | (build-system r-build-system) |
2331 | (propagated-inputs | |
2332 | `(("r-abind" ,r-abind))) | |
2333 | (home-page "https://github.com/RobinHankin/magic.git") | |
2334 | (synopsis "Create and investigate magic squares") | |
2335 | (description | |
2336 | "This package provides a collection of efficient, vectorized algorithms | |
2337 | for the creation and investigation of magic squares and hypercubes, including | |
2338 | a variety of functions for the manipulation and analysis of arbitrarily | |
2339 | dimensioned arrays.") | |
2340 | (license license:gpl2))) | |
2341 | ||
d9bec9a8 RW |
2342 | (define-public r-rmysql |
2343 | (package | |
2344 | (name "r-rmysql") | |
221b3b16 | 2345 | (version "0.10.16") |
d9bec9a8 RW |
2346 | (source |
2347 | (origin | |
2348 | (method url-fetch) | |
2349 | (uri (cran-uri "RMySQL" version)) | |
2350 | (sha256 | |
2351 | (base32 | |
221b3b16 | 2352 | "1gh4b730g2v78jg5iln8fkz808ri2vhnhnw43wzkkjpy53jh48sp")))) |
d9bec9a8 RW |
2353 | (properties `((upstream-name . "RMySQL"))) |
2354 | (build-system r-build-system) | |
2355 | (native-inputs | |
2356 | `(("pkg-config" ,pkg-config))) | |
2357 | (inputs | |
2358 | `(("mariadb" ,mariadb) | |
2359 | ("zlib" ,zlib))) | |
2360 | (propagated-inputs | |
2361 | `(("r-dbi" ,r-dbi))) | |
2362 | (home-page "https://github.com/r-dbi/RMySQL") | |
2363 | (synopsis "Database interface and MySQL driver for R") | |
2364 | (description | |
2365 | "This package provides a DBI interface to MySQL / MariaDB. The RMySQL | |
2366 | package contains an old implementation based on legacy code from S-PLUS which | |
2367 | is being phased out. A modern MySQL client based on Rcpp is available from | |
2368 | the RMariaDB package.") | |
2369 | (license license:gpl2))) | |
2370 | ||
5574cb81 RW |
2371 | (define-public r-rpostgresql |
2372 | (package | |
2373 | (name "r-rpostgresql") | |
2374 | (version "0.6-2") | |
2375 | (source | |
2376 | (origin | |
2377 | (method url-fetch) | |
2378 | (uri (cran-uri "RPostgreSQL" version)) | |
2379 | (sha256 | |
2380 | (base32 | |
2381 | "1mdhw5821v2h7hpa53v10wz53k4i90r0vb6a3dia5gq8f9j1h088")))) | |
2382 | (properties `((upstream-name . "RPostgreSQL"))) | |
2383 | (build-system r-build-system) | |
2384 | (inputs | |
2385 | `(("postgresql" ,postgresql))) | |
2386 | (propagated-inputs | |
2387 | `(("r-dbi" ,r-dbi))) | |
2388 | (home-page "https://github.com/tomoakin/RPostgreSQL") | |
2389 | (synopsis "R interface to the PostgreSQL database system") | |
2390 | (description | |
2391 | "This package provides a Database Interface (DBI) compliant driver for R | |
2392 | to access PostgreSQL database systems.") | |
2393 | ;; The whole package is released under GPL version 2. It includes code | |
2394 | ;; under the PostgreSQL license. | |
2395 | (license license:gpl2))) | |
2396 | ||
9604429d RW |
2397 | (define-public r-geometry |
2398 | (package | |
2399 | (name "r-geometry") | |
2400 | (version "0.3-6") | |
2401 | (source | |
2402 | (origin | |
2403 | (method url-fetch) | |
2404 | (uri (cran-uri "geometry" version)) | |
2405 | (sha256 | |
2406 | (base32 | |
2407 | "0s09vi0rr0smys3an83mz6fk41bplxyz4myrbiinf4qpk6n33qib")))) | |
2408 | (build-system r-build-system) | |
2409 | (propagated-inputs `(("r-magic" ,r-magic))) | |
2410 | (home-page "http://geometry.r-forge.r-project.org/") | |
2411 | (synopsis "Mesh generation and surface tesselation") | |
2412 | (description | |
2413 | "This package makes the qhull library available in R, in a similar manner | |
2414 | as in Octave. Qhull computes convex hulls, Delaunay triangulations, halfspace | |
2415 | intersections about a point, Voronoi diagrams, furthest-site Delaunay | |
2416 | triangulations, and furthest-site Voronoi diagrams. It runs in 2-d, 3-d, 4-d, | |
2417 | and higher dimensions. It implements the Quickhull algorithm for computing | |
2418 | the convex hull. Qhull does not support constrained Delaunay triangulations, | |
2419 | or mesh generation of non-convex objects, but the package does include some R | |
2420 | functions that allow for this. Currently the package only gives access to | |
2421 | Delaunay triangulation and convex hull computation.") | |
2422 | ;; The Qhull sources are included and are distributed under a custom | |
2423 | ;; non-copyleft license. The R sources are released under GPL version 2. | |
2424 | (license (list license:gpl2 | |
2425 | (license:non-copyleft "http://www.qhull.org/COPYING.txt"))))) | |
2426 | ||
f57b883e RW |
2427 | (define-public r-ddalpha |
2428 | (package | |
2429 | (name "r-ddalpha") | |
fc74de42 | 2430 | (version "1.3.8") |
f57b883e RW |
2431 | (source |
2432 | (origin | |
2433 | (method url-fetch) | |
2434 | (uri (cran-uri "ddalpha" version)) | |
2435 | (sha256 | |
2436 | (base32 | |
fc74de42 | 2437 | "0gi0hl14ghgf65zxsvgzh9z6xx1nyi49cpx192lmwrwqn3dy7ba0")))) |
f57b883e RW |
2438 | (build-system r-build-system) |
2439 | (propagated-inputs | |
2440 | `(("r-bh" ,r-bh) | |
2441 | ("r-class" ,r-class) | |
4f184233 | 2442 | ("r-geometry" ,r-geometry) |
f57b883e RW |
2443 | ("r-mass" ,r-mass) |
2444 | ("r-rcpp" ,r-rcpp) | |
e90456b9 RW |
2445 | ("r-robustbase" ,r-robustbase) |
2446 | ("r-sfsmisc" ,r-sfsmisc))) | |
2447 | (native-inputs | |
2448 | `(("gfortran" ,gfortran))) | |
e9960d8c | 2449 | (home-page "https://cran.r-project.org/web/packages/ddalpha") |
f57b883e RW |
2450 | (synopsis "Depth-Based classification and calculation of data depth") |
2451 | (description | |
2452 | "This package contains procedures for depth-based supervised learning, | |
2453 | which are entirely non-parametric, in particular the DDalpha-procedure (Lange, | |
2454 | Mosler and Mozharovskyi, 2014). The training data sample is transformed by a | |
2455 | statistical depth function to a compact low-dimensional space, where the final | |
2456 | classification is done. It also offers an extension to functional data and | |
2457 | routines for calculating certain notions of statistical depth functions. 50 | |
2458 | multivariate and 5 functional classification problems are included.") | |
2459 | (license license:gpl2))) | |
5a87093f RW |
2460 | |
2461 | (define-public r-gower | |
2462 | (package | |
2463 | (name "r-gower") | |
2464 | (version "0.1.2") | |
2465 | (source | |
2466 | (origin | |
2467 | (method url-fetch) | |
2468 | (uri (cran-uri "gower" version)) | |
2469 | (sha256 | |
2470 | (base32 | |
2471 | "1mbrj1lam3jfbby2j32shmmj5cn09zx3rkxbamq7q8sdg39b54gb")))) | |
2472 | (build-system r-build-system) | |
2473 | (native-inputs | |
2474 | `(("r-knitr" ,r-knitr))) | |
2475 | (home-page "https://github.com/markvanderloo/gower") | |
2476 | (synopsis "Gower's distance") | |
2477 | (description | |
2478 | "This package provides tools to compute Gower's distance (or similarity) | |
2479 | coefficient between records, and to compute the top-n matches between records. | |
2480 | Core algorithms are executed in parallel on systems supporting OpenMP.") | |
2481 | (license license:gpl3))) | |
649cf27c RW |
2482 | |
2483 | (define-public r-rcpproll | |
2484 | (package | |
2485 | (name "r-rcpproll") | |
d0396c8e | 2486 | (version "0.3.0") |
649cf27c RW |
2487 | (source |
2488 | (origin | |
2489 | (method url-fetch) | |
2490 | (uri (cran-uri "RcppRoll" version)) | |
2491 | (sha256 | |
2492 | (base32 | |
d0396c8e | 2493 | "0srzfhzkk42kzrdjnhbb37946jp1p688rgysy6k3i2is8jb21zyb")))) |
649cf27c RW |
2494 | (properties `((upstream-name . "RcppRoll"))) |
2495 | (build-system r-build-system) | |
2496 | (propagated-inputs | |
2497 | `(("r-rcpp" ,r-rcpp))) | |
e9960d8c | 2498 | (home-page "https://cran.r-project.org/web/packages/RcppRoll") |
649cf27c RW |
2499 | (synopsis "Efficient rolling and windowed operations") |
2500 | (description | |
2501 | "This package provides fast and efficient routines for common rolling / | |
2502 | windowed operations. Routines for the efficient computation of windowed mean, | |
2503 | median, sum, product, minimum, maximum, standard deviation and variance are | |
2504 | provided.") | |
2505 | (license license:gpl2+))) | |
6c3d42d6 RW |
2506 | |
2507 | (define-public r-ipred | |
2508 | (package | |
2509 | (name "r-ipred") | |
56af171f | 2510 | (version "0.9-8") |
6c3d42d6 RW |
2511 | (source |
2512 | (origin | |
2513 | (method url-fetch) | |
2514 | (uri (cran-uri "ipred" version)) | |
2515 | (sha256 | |
2516 | (base32 | |
56af171f | 2517 | "01xcg3c121ndfpz9dirqxszknh4yb1p222p7f1wbwwhdrg1i27cw")))) |
6c3d42d6 RW |
2518 | (build-system r-build-system) |
2519 | (propagated-inputs | |
2520 | `(("r-class" ,r-class) | |
2521 | ("r-mass" ,r-mass) | |
2522 | ("r-nnet" ,r-nnet) | |
2523 | ("r-prodlim" ,r-prodlim) | |
2524 | ("r-rpart" ,r-rpart) | |
2525 | ("r-survival" ,r-survival))) | |
e9960d8c | 2526 | (home-page "https://cran.r-project.org/web/packages/ipred") |
6c3d42d6 RW |
2527 | (synopsis "Improved predictors") |
2528 | (description | |
2529 | "This package provides improved predictive models by indirect | |
2530 | classification and bagging for classification, regression and survival | |
2531 | problems as well as resampling based estimators of prediction error.") | |
2532 | (license license:gpl2+))) | |
ba4527ab | 2533 | |
cdc129dc RW |
2534 | (define-public r-psych |
2535 | (package | |
2536 | (name "r-psych") | |
523762e3 | 2537 | (version "1.8.12") |
cdc129dc RW |
2538 | (source |
2539 | (origin | |
2540 | (method url-fetch) | |
2541 | (uri (cran-uri "psych" version)) | |
2542 | (sha256 | |
2543 | (base32 | |
523762e3 | 2544 | "0hvp0dkkkn0szaf5rkirr3kb8qmr4bxwl775m5wmpvn1kc25w5vf")))) |
cdc129dc RW |
2545 | (build-system r-build-system) |
2546 | (propagated-inputs | |
2547 | `(("r-foreign" ,r-foreign) | |
2548 | ("r-lattice" ,r-lattice) | |
2549 | ("r-mnormt" ,r-mnormt) | |
2550 | ("r-nlme" ,r-nlme))) | |
e9960d8c | 2551 | (home-page "https://cran.r-project.org/web/packages/psych/") |
cdc129dc RW |
2552 | (synopsis "Procedures for psychological, psychometric, and personality research") |
2553 | (description | |
2554 | "This package provides a general purpose toolbox for personality, | |
2555 | psychometric theory and experimental psychology. Functions are primarily for | |
2556 | multivariate analysis and scale construction using factor analysis, principal | |
2557 | component analysis, cluster analysis and reliability analysis, although others | |
2558 | provide basic descriptive statistics. Item Response Theory is done using | |
2559 | factor analysis of tetrachoric and polychoric correlations. Functions for | |
2560 | analyzing data at multiple levels include within and between group statistics, | |
2561 | including correlations and factor analysis. Functions for simulating and | |
2562 | testing particular item and test structures are included. Several functions | |
2563 | serve as a useful front end for structural equation modeling. Graphical | |
2564 | displays of path diagrams, factor analysis and structural equation models are | |
2565 | created using basic graphics.") | |
2566 | (license license:gpl2+))) | |
2567 | ||
25c67ecf RW |
2568 | (define-public r-generics |
2569 | (package | |
2570 | (name "r-generics") | |
2571 | (version "0.0.2") | |
2572 | (source | |
2573 | (origin | |
2574 | (method url-fetch) | |
2575 | (uri (cran-uri "generics" version)) | |
2576 | (sha256 | |
2577 | (base32 | |
2578 | "0xk1xhpy7gpv3pvaygzhpfdxj72zmb38pb4nscfyg2ff36vx3cvi")))) | |
2579 | (build-system r-build-system) | |
2580 | (home-page "https://github.com/r-lib/generics") | |
2581 | (synopsis "Common S3 generics not provided by base R methods") | |
2582 | (description | |
2583 | "In order to reduce potential package dependencies and conflicts, | |
2584 | generics provides a number of commonly used S3 generics that are not provided | |
2585 | by base R methods related to model fitting.") | |
2586 | (license license:gpl2))) | |
2587 | ||
6c8c8c6b RW |
2588 | (define-public r-broom |
2589 | (package | |
2590 | (name "r-broom") | |
813d9c51 | 2591 | (version "0.5.1") |
6c8c8c6b RW |
2592 | (source |
2593 | (origin | |
2594 | (method url-fetch) | |
2595 | (uri (cran-uri "broom" version)) | |
2596 | (sha256 | |
2597 | (base32 | |
813d9c51 | 2598 | "0bmf38yvwalqf5j5yrr48nsk5k3n75s0gwcw621hp5lgrgvnp7ns")))) |
6c8c8c6b RW |
2599 | (build-system r-build-system) |
2600 | (propagated-inputs | |
45c156bf RW |
2601 | `(("r-backports" ,r-backports) |
2602 | ("r-dplyr" ,r-dplyr) | |
813d9c51 | 2603 | ("r-generics" ,r-generics) |
6c8c8c6b | 2604 | ("r-nlme" ,r-nlme) |
45c156bf | 2605 | ("r-purrr" ,r-purrr) |
6c8c8c6b RW |
2606 | ("r-reshape2" ,r-reshape2) |
2607 | ("r-stringr" ,r-stringr) | |
45c156bf | 2608 | ("r-tibble" ,r-tibble) |
6c8c8c6b | 2609 | ("r-tidyr" ,r-tidyr))) |
6e19d50e | 2610 | (home-page "https://github.com/tidyverse/broom") |
6c8c8c6b RW |
2611 | (synopsis "Convert statistical analysis objects into tidy data frames") |
2612 | (description | |
2613 | "This package provides tools to convert statistical analysis objects from | |
2614 | R into tidy data frames, so that they can more easily be combined, reshaped | |
2615 | and otherwise processed with tools like @code{dplyr}, @code{tidyr} and | |
2616 | @code{ggplot2}. The package provides three S3 generics: @code{tidy}, which | |
2617 | summarizes a model's statistical findings such as coefficients of a | |
2618 | regression; @code{augment}, which adds columns to the original data such as | |
2619 | predictions, residuals and cluster assignments; and @code{glance}, which | |
2620 | provides a one-row summary of model-level statistics.") | |
2621 | (license license:expat))) | |
2622 | ||
ba4527ab RW |
2623 | (define-public r-recipes |
2624 | (package | |
2625 | (name "r-recipes") | |
e396b378 | 2626 | (version "0.1.4") |
ba4527ab RW |
2627 | (source |
2628 | (origin | |
2629 | (method url-fetch) | |
2630 | (uri (cran-uri "recipes" version)) | |
2631 | (sha256 | |
2632 | (base32 | |
e396b378 | 2633 | "0bwijw4427v2k5z3qci2kyr5dyzql8b3lvf88rwy16p741jckjsn")))) |
ba4527ab RW |
2634 | (build-system r-build-system) |
2635 | (propagated-inputs | |
18a11c6d RW |
2636 | `(("r-broom" ,r-broom) |
2637 | ("r-ddalpha" ,r-ddalpha) | |
ba4527ab RW |
2638 | ("r-dimred" ,r-dimred) |
2639 | ("r-dplyr" ,r-dplyr) | |
2640 | ("r-gower" ,r-gower) | |
2641 | ("r-ipred" ,r-ipred) | |
2642 | ("r-lubridate" ,r-lubridate) | |
2643 | ("r-magrittr" ,r-magrittr) | |
18a11c6d | 2644 | ("r-matrix" ,r-matrix) |
3321234c | 2645 | ("r-pls" ,r-pls) |
ba4527ab RW |
2646 | ("r-purrr" ,r-purrr) |
2647 | ("r-rcpproll" ,r-rcpproll) | |
2648 | ("r-rlang" ,r-rlang) | |
2649 | ("r-tibble" ,r-tibble) | |
2650 | ("r-tidyselect" ,r-tidyselect) | |
57039918 RW |
2651 | ("r-timedate" ,r-timedate) |
2652 | ("r-withr" ,r-withr))) | |
ba4527ab RW |
2653 | (home-page "https://github.com/topepo/recipes") |
2654 | (synopsis "Preprocessing tools to create design matrices") | |
2655 | (description | |
2656 | "Recipes is an extensible framework to create and preprocess design | |
2657 | matrices. Recipes consist of one or more data manipulation and analysis | |
2658 | \"steps\". Statistical parameters for the steps can be estimated from an | |
2659 | initial data set and then applied to other data sets. The resulting design | |
2660 | matrices can then be used as inputs into statistical or machine learning | |
2661 | models.") | |
2662 | (license license:gpl2))) | |
1ab867be RW |
2663 | |
2664 | (define-public r-pdist | |
2665 | (package | |
2666 | (name "r-pdist") | |
2667 | (version "1.2") | |
2668 | (source | |
2669 | (origin | |
2670 | (method url-fetch) | |
2671 | (uri (cran-uri "pdist" version)) | |
2672 | (sha256 | |
2673 | (base32 | |
2674 | "18nd3mgad11f2zmwcp0w3sxlch4a9y6wp8dfdyzvjn7y4b4bq0dd")))) | |
2675 | (build-system r-build-system) | |
2676 | (home-page "https://github.com/jeffwong/pdist") | |
2677 | (synopsis "Partitioned distance function") | |
2678 | (description | |
2679 | "Pdist computes the euclidean distance between rows of a matrix X and | |
2680 | rows of another matrix Y. Previously, this could be done by binding the two | |
2681 | matrices together and calling @code{dist}, but this creates unnecessary | |
2682 | computation by computing the distances between a row of X and another row of | |
2683 | X, and likewise for Y. Pdist strictly computes distances across the two | |
2684 | matrices, not within the same matrix, making computations significantly faster | |
2685 | for certain use cases.") | |
2686 | (license license:gpl3+))) | |
81e0b625 RW |
2687 | |
2688 | (define-public r-ggrepel | |
2689 | (package | |
2690 | (name "r-ggrepel") | |
0759d87d | 2691 | (version "0.8.0") |
81e0b625 RW |
2692 | (source |
2693 | (origin | |
2694 | (method url-fetch) | |
2695 | (uri (cran-uri "ggrepel" version)) | |
2696 | (sha256 | |
2697 | (base32 | |
0759d87d | 2698 | "1m3p84d6nh9mzzvxb82vgig3ngcvkz86rjwzl9a66ckdf5p611k3")))) |
81e0b625 RW |
2699 | (build-system r-build-system) |
2700 | (propagated-inputs | |
2701 | `(("r-ggplot2" ,r-ggplot2) | |
2702 | ("r-rcpp" ,r-rcpp) | |
2703 | ("r-scales" ,r-scales))) | |
2704 | (home-page "http://github.com/slowkow/ggrepel") | |
2705 | (synopsis "Repulsive text and label geometries for ggplot2") | |
2706 | (description | |
2707 | "This package provides text and label geometries for ggplot2 that help to | |
2708 | avoid overlapping text labels. Labels repel away from each other and away | |
2709 | from the data points.") | |
2710 | (license license:gpl3))) | |
6b968c4c RW |
2711 | |
2712 | (define-public r-corrplot | |
2713 | (package | |
2714 | (name "r-corrplot") | |
2715 | (version "0.84") | |
2716 | (source | |
2717 | (origin | |
2718 | (method url-fetch) | |
2719 | (uri (cran-uri "corrplot" version)) | |
2720 | (sha256 | |
2721 | (base32 | |
2722 | "1k03qd8db7pwg1v318xapx5mpiypiz2n07qr19c4b45diri5xkhd")))) | |
2723 | (build-system r-build-system) | |
2724 | (home-page "https://github.com/taiyun/corrplot") | |
2725 | (synopsis "Visualization of a correlation matrix") | |
2726 | (description | |
2727 | "This package provides a graphical display of a correlation matrix or | |
2728 | general matrix. It also contains some algorithms to do matrix reordering. In | |
2729 | addition, corrplot is good at details, including choosing color, text labels, | |
2730 | color labels, layout, etc.") | |
2731 | ;; Any version of the GPL | |
2732 | (license license:gpl2+))) | |
a40a04fd RW |
2733 | |
2734 | (define-public r-stringdist | |
2735 | (package | |
2736 | (name "r-stringdist") | |
2bce7795 | 2737 | (version "0.9.5.1") |
a40a04fd RW |
2738 | (source |
2739 | (origin | |
2740 | (method url-fetch) | |
2741 | (uri (cran-uri "stringdist" version)) | |
2742 | (sha256 | |
2743 | (base32 | |
2bce7795 | 2744 | "0gap1g9xwhp0zxqsznkc2carpvi80z03prr4q8m528684lznx2xa")))) |
a40a04fd RW |
2745 | (build-system r-build-system) |
2746 | (home-page "https://github.com/markvanderloo/stringdist") | |
2747 | (synopsis "Approximate string matching and string distance functions") | |
2748 | (description | |
2749 | "This package implements an approximate string matching version of R's | |
2750 | native @code{match} function. It can calculate various string distances based | |
2751 | on edits (Damerau-Levenshtein, Hamming, Levenshtein, optimal sting alignment), | |
2752 | qgrams (q- gram, cosine, jaccard distance) or heuristic metrics (Jaro, | |
2753 | Jaro-Winkler). An implementation of soundex is provided as well. Distances | |
2754 | can be computed between character vectors while taking proper care of encoding | |
2755 | or between integer vectors representing generic sequences.") | |
2756 | (license license:gpl3+))) | |
10e16fa9 | 2757 | |
dc668352 RW |
2758 | (define-public r-ucminf |
2759 | (package | |
2760 | (name "r-ucminf") | |
2761 | (version "1.1-4") | |
2762 | (source | |
2763 | (origin | |
2764 | (method url-fetch) | |
2765 | (uri (cran-uri "ucminf" version)) | |
2766 | (sha256 | |
2767 | (base32 | |
2768 | "01vggwg1w71k98qs6fhb0x1843vi322mf4g3hbclks94kcpkisx2")))) | |
2769 | (build-system r-build-system) | |
2770 | (native-inputs `(("gfortran" ,gfortran))) | |
2771 | (home-page "https://cran.r-project.org/web/packages/ucminf/") | |
2772 | (synopsis "General-purpose unconstrained non-linear optimization") | |
2773 | (description | |
2774 | "This package provides an implementation of an algorithm for | |
2775 | general-purpose unconstrained non-linear optimization. The algorithm is of | |
2776 | quasi-Newton type with BFGS updating of the inverse Hessian and soft line | |
2777 | search with a trust region type monitoring of the input to the line search | |
2778 | algorithm. The interface of @code{ucminf} is designed for easy interchange | |
2779 | with the package @code{optim}.") | |
2780 | (license license:gpl2+))) | |
2781 | ||
b8f6e2f8 RW |
2782 | (define-public r-ordinal |
2783 | (package | |
2784 | (name "r-ordinal") | |
2785 | (version "2018.8-25") | |
2786 | (source | |
2787 | (origin | |
2788 | (method url-fetch) | |
2789 | (uri (cran-uri "ordinal" version)) | |
2790 | (sha256 | |
2791 | (base32 | |
2792 | "03cv9hcrw8j3lhamzhz8sk2p3ns4cw9z41x49h301k2b3pajv43h")))) | |
2793 | (build-system r-build-system) | |
2794 | (propagated-inputs | |
2795 | `(("r-mass" ,r-mass) | |
2796 | ("r-matrix" ,r-matrix) | |
2797 | ("r-numderiv" ,r-numderiv) | |
2798 | ("r-ucminf" ,r-ucminf))) | |
2799 | (home-page "https://github.com/runehaubo/ordinal") | |
2800 | (synopsis "Regression models for ordinal data") | |
2801 | (description | |
2802 | "This package provides an implementation of cumulative link (mixed) | |
2803 | models also known as ordered regression models, proportional odds models, | |
2804 | proportional hazards models for grouped survival times and ordered models. | |
2805 | Estimation is via maximum likelihood and mixed models are fitted with the | |
2806 | Laplace approximation and adaptive Gauss-Hermite quadrature.") | |
2807 | (license license:gpl2+))) | |
2808 | ||
fe1495e3 RW |
2809 | (define-public r-jomo |
2810 | (package | |
2811 | (name "r-jomo") | |
fccb2450 | 2812 | (version "2.6-5") |
fe1495e3 RW |
2813 | (source |
2814 | (origin | |
2815 | (method url-fetch) | |
2816 | (uri (cran-uri "jomo" version)) | |
2817 | (sha256 | |
2818 | (base32 | |
fccb2450 | 2819 | "109q5m69clrvvialxdxznd0wdb54ajhx84nj8slx8bf909a427mj")))) |
fe1495e3 RW |
2820 | (build-system r-build-system) |
2821 | (propagated-inputs | |
2822 | `(("r-lme4" ,r-lme4) | |
fccb2450 | 2823 | ("r-mass" ,r-mass) |
e7630cc9 | 2824 | ("r-ordinal" ,r-ordinal) |
fe1495e3 RW |
2825 | ("r-survival" ,r-survival))) |
2826 | (home-page "https://cran.r-project.org/web/packages/jomo/") | |
2827 | (synopsis "Multilevel Joint Modelling Multiple Imputation") | |
2828 | (description | |
2829 | "Similarly to Schafer's package pan, jomo is a package for multilevel | |
2830 | joint modelling multiple imputation @url{Carpenter and Kenward (2013), | |
2831 | http://doi.org/10.1002/9781119942283}. Novel aspects of jomo are the | |
2832 | possibility of handling binary and categorical data through latent normal | |
2833 | variables, the option to use cluster-specific covariance matrices and to | |
2834 | impute compatibly with the substantive model.") | |
2835 | (license license:gpl2))) | |
2836 | ||
03e718fb RW |
2837 | (define-public r-pan |
2838 | (package | |
2839 | (name "r-pan") | |
a7265593 | 2840 | (version "1.6") |
03e718fb RW |
2841 | (source |
2842 | (origin | |
2843 | (method url-fetch) | |
2844 | (uri (cran-uri "pan" version)) | |
2845 | (sha256 | |
2846 | (base32 | |
a7265593 | 2847 | "1dk3jjj826p7xrz10qz04vyc068xnypg7bp0pj4c32z3da0xzh5d")))) |
03e718fb RW |
2848 | (build-system r-build-system) |
2849 | (native-inputs `(("gfortran" ,gfortran))) | |
2850 | (home-page "https://cran.r-project.org/web/packages/pan/") | |
2851 | (synopsis "Multiple imputation for multivariate panel or clustered data") | |
2852 | (description | |
2853 | "This package implements multiple imputation for multivariate panel or | |
2854 | clustered data.") | |
2855 | (license license:gpl3))) | |
2856 | ||
84e7147a RW |
2857 | (define-public r-mitml |
2858 | (package | |
2859 | (name "r-mitml") | |
1c6d199e | 2860 | (version "0.3-7") |
84e7147a RW |
2861 | (source |
2862 | (origin | |
2863 | (method url-fetch) | |
2864 | (uri (cran-uri "mitml" version)) | |
2865 | (sha256 | |
2866 | (base32 | |
1c6d199e | 2867 | "0yqyxkyi1kmv5k63wxj5kkg5g8igk1axk2csb4xhj6wz0p89dxy6")))) |
84e7147a RW |
2868 | (build-system r-build-system) |
2869 | (propagated-inputs | |
2870 | `(("r-haven" ,r-haven) | |
2871 | ("r-jomo" ,r-jomo) | |
2872 | ("r-pan" ,r-pan))) | |
2873 | (home-page "https://cran.r-project.org/web/packages/mitml/") | |
2874 | (synopsis "Tools for multiple imputation in multilevel modeling") | |
2875 | (description | |
2876 | "This package provides tools for multiple imputation of missing data in | |
2877 | multilevel modeling. It includes a user-friendly interface to the packages | |
2878 | pan and jomo, and several functions for visualization, data management and the | |
2879 | analysis of multiply imputed data sets.") | |
2880 | (license license:gpl2+))) | |
2881 | ||
10e16fa9 RW |
2882 | (define-public r-mice |
2883 | (package | |
2884 | (name "r-mice") | |
1b3b2a72 | 2885 | (version "3.3.0") |
10e16fa9 RW |
2886 | (source |
2887 | (origin | |
2888 | (method url-fetch) | |
2889 | (uri (cran-uri "mice" version)) | |
2890 | (sha256 | |
2891 | (base32 | |
1b3b2a72 | 2892 | "1p0ipbqk5aqdi7iikw3qrjyvdi9sdhpnw1h5mwakwvv0yl0pzbyx")))) |
10e16fa9 RW |
2893 | (build-system r-build-system) |
2894 | (propagated-inputs | |
aea3be25 RW |
2895 | `(("r-broom" ,r-broom) |
2896 | ("r-dplyr" ,r-dplyr) | |
2897 | ("r-lattice" ,r-lattice) | |
10e16fa9 | 2898 | ("r-mass" ,r-mass) |
aea3be25 | 2899 | ("r-mitml" ,r-mitml) |
10e16fa9 RW |
2900 | ("r-nnet" ,r-nnet) |
2901 | ("r-rcpp" ,r-rcpp) | |
aea3be25 | 2902 | ("r-rlang" ,r-rlang) |
10e16fa9 RW |
2903 | ("r-rpart" ,r-rpart) |
2904 | ("r-survival" ,r-survival))) | |
2905 | (home-page "https://cran.r-project.org/web/packages/mice/") | |
2906 | (synopsis "Multivariate imputation by chained equations") | |
2907 | (description | |
2908 | "Multiple imputation using @dfn{Fully Conditional Specification} (FCS) | |
2909 | implemented by the MICE algorithm as described in @url{Van Buuren and | |
2910 | Groothuis-Oudshoorn (2011), http://doi.org/10.18637/jss.v045.i03}. Each | |
2911 | variable has its own imputation model. Built-in imputation models are | |
2912 | provided for continuous data (predictive mean matching, normal), binary | |
2913 | data (logistic regression), unordered categorical data (polytomous logistic | |
2914 | regression) and ordered categorical data (proportional odds). MICE can also | |
2915 | impute continuous two-level data (normal model, pan, second-level variables). | |
2916 | Passive imputation can be used to maintain consistency between variables. | |
2917 | Various diagnostic plots are available to inspect the quality of the | |
2918 | imputations.") | |
2919 | ;; Any of these two versions. | |
2920 | (license (list license:gpl2 license:gpl3)))) | |
7fd5f60b | 2921 | |
02cdb45f RW |
2922 | (define-public r-truncnorm |
2923 | (package | |
2924 | (name "r-truncnorm") | |
9d6f3925 | 2925 | (version "1.0-8") |
02cdb45f RW |
2926 | (source |
2927 | (origin | |
2928 | (method url-fetch) | |
2929 | (uri (cran-uri "truncnorm" version)) | |
2930 | (sha256 | |
2931 | (base32 | |
9d6f3925 | 2932 | "0zn88wdd58223kibk085rhsikl4yhlrwiyq109hzjg06hy6lwmj9")))) |
02cdb45f | 2933 | (build-system r-build-system) |
e9960d8c | 2934 | (home-page "https://cran.r-project.org/web/packages/truncnorm/") |
02cdb45f RW |
2935 | (synopsis "Truncated normal distribution") |
2936 | (description "This package provides functions for the truncated normal | |
2937 | distribution with mean equal to @code{mean} and standard deviation equal to | |
2938 | @code{sd}. It includes density, distribution, quantile, and expected value | |
2939 | functions, as well as a random generation function.") | |
2940 | (license license:gpl2))) | |
2941 | ||
cb8b4c11 RW |
2942 | (define-public r-rsolnp |
2943 | (package | |
2944 | (name "r-rsolnp") | |
2945 | (version "1.16") | |
2946 | (source | |
2947 | (origin | |
2948 | (method url-fetch) | |
2949 | (uri (cran-uri "Rsolnp" version)) | |
2950 | (sha256 | |
2951 | (base32 | |
2952 | "0w7nkj6igr0gi7r7jg950lsx7dj6aipgxi6vbjsf5f5yc9h7fhii")))) | |
2953 | (properties `((upstream-name . "Rsolnp"))) | |
2954 | (build-system r-build-system) | |
2955 | (propagated-inputs | |
2956 | `(("r-truncnorm" ,r-truncnorm))) | |
e9960d8c | 2957 | (home-page "https://cran.r-project.org/web/packages/Rsolnp/") |
cb8b4c11 RW |
2958 | (synopsis "General non-linear optimization") |
2959 | (description "The Rsolnp package implements a general non-linear augmented | |
2960 | Lagrange multiplier method solver, a @dfn{sequential quadratic | |
2961 | programming} (SQP) based solver).") | |
2962 | ;; Any version of the GPL. | |
2963 | (license license:gpl2+))) | |
2964 | ||
7fd5f60b RW |
2965 | (define-public r-hardyweinberg |
2966 | (package | |
2967 | (name "r-hardyweinberg") | |
da5cca36 | 2968 | (version "1.6.1") |
7fd5f60b RW |
2969 | (source |
2970 | (origin | |
2971 | (method url-fetch) | |
2972 | (uri (cran-uri "HardyWeinberg" version)) | |
2973 | (sha256 | |
2974 | (base32 | |
da5cca36 | 2975 | "16n8qanxx0p5ny5zqxafn8hwb1xv94y1wig1iql8as5a5qh8lwcz")))) |
7fd5f60b RW |
2976 | (properties `((upstream-name . "HardyWeinberg"))) |
2977 | (build-system r-build-system) | |
2978 | (propagated-inputs | |
2979 | `(("r-mice" ,r-mice) | |
d0394944 RW |
2980 | ("r-rcpp" ,r-rcpp) |
2981 | ("r-rsolnp" ,r-rsolnp))) | |
7fd5f60b RW |
2982 | (home-page "https://cran.r-project.org/package=HardyWeinberg") |
2983 | (synopsis "Statistical tests and graphics for Hardy-Weinberg equilibrium") | |
2984 | (description | |
2985 | "This package contains tools for exploring Hardy-Weinberg equilibrium for | |
2986 | diallelic genetic marker data. All classical tests (chi-square, exact, | |
2987 | likelihood-ratio and permutation tests) for Hardy-Weinberg equilibrium are | |
2988 | included in the package, as well as functions for power computation and for | |
2989 | the simulation of marker data under equilibrium and disequilibrium. Routines | |
2990 | for dealing with markers on the X-chromosome are included. Functions for | |
2991 | testing equilibrium in the presence of missing data by using multiple | |
2992 | imputation are also provided. Implements several graphics for exploring the | |
2993 | equilibrium status of a large set of diallelic markers: ternary plots with | |
2994 | acceptance regions, log-ratio plots and Q-Q plots.") | |
2995 | (license license:gpl2+))) | |
3a22732c RW |
2996 | |
2997 | (define-public r-sm | |
2998 | (package | |
2999 | (name "r-sm") | |
5621b840 | 3000 | (version "2.2-5.6") |
3a22732c RW |
3001 | (source |
3002 | (origin | |
3003 | (method url-fetch) | |
3004 | (uri (cran-uri "sm" version)) | |
3005 | (sha256 | |
3006 | (base32 | |
5621b840 | 3007 | "0c4whcx879gb4lwvqnzxl5n9xgpcqh2c54ip9ami3mwfprzcv45q")))) |
3a22732c RW |
3008 | (build-system r-build-system) |
3009 | (native-inputs `(("gfortran" ,gfortran))) | |
3010 | (home-page "http://www.stats.gla.ac.uk/~adrian/sm/") | |
3011 | (synopsis "Smoothing methods for nonparametric regression and density estimation") | |
3012 | (description | |
3013 | "This is software accompanying the book 'Applied Smoothing Techniques for | |
3014 | Data Analysis---The Kernel Approach with S-Plus Illustrations', Oxford | |
3015 | University Press. It provides smoothing methods for nonparametric regression | |
3016 | and density estimation") | |
3017 | (license license:gpl2+))) | |
9232cac4 | 3018 | |
6174db2b RJ |
3019 | (define-public r-venndiagram |
3020 | (package | |
3021 | (name "r-venndiagram") | |
3022 | (version "1.6.20") | |
3023 | (source (origin | |
3024 | (method url-fetch) | |
3025 | (uri (cran-uri "VennDiagram" version)) | |
3026 | (sha256 | |
3027 | (base32 | |
3028 | "1ic1jaxzw98si2p4n1fl4n3myhd7fpw0njb634cwhviwybzv6775")))) | |
3029 | (properties `((upstream-name . "VennDiagram"))) | |
3030 | (build-system r-build-system) | |
3031 | (propagated-inputs | |
3032 | `(("r-futile-logger" ,r-futile-logger))) | |
3033 | (home-page "https://cran.r-project.org/web/packages/VennDiagram/") | |
3034 | (synopsis "Generate High-Resolution Venn and Euler Plots") | |
3035 | (description | |
3036 | "This package provides a set of functions to generate high-resolution | |
3037 | Venn and Euler plots. It includes handling for several special cases, | |
3038 | including two-case scaling, and extensive customization of plot shape and | |
3039 | structure.") | |
3040 | (license license:gpl2+))) | |
3041 | ||
9232cac4 RW |
3042 | (define-public r-vioplot |
3043 | (package | |
3044 | (name "r-vioplot") | |
3045 | (version "0.2") | |
3046 | (source | |
3047 | (origin | |
3048 | (method url-fetch) | |
3049 | (uri (cran-uri "vioplot" version)) | |
3050 | (sha256 | |
3051 | (base32 | |
3052 | "16wkb26kv6qr34hv5zgqmgq6zzgysg9i78pvy2c097lr60v087v0")))) | |
3053 | (build-system r-build-system) | |
3054 | (propagated-inputs `(("r-sm" ,r-sm))) | |
3055 | (home-page "http://wsopuppenkiste.wiso.uni-goettingen.de/~dadler") | |
3056 | (synopsis "Violin plot") | |
3057 | (description | |
3058 | "This package provides a violin plot, which is a combination of a box | |
3059 | plot and a kernel density plot.") | |
3060 | (license license:bsd-3))) | |
7b0569c0 RW |
3061 | |
3062 | (define-public r-rsofia | |
3063 | (package | |
3064 | (name "r-rsofia") | |
3065 | (version "1.1") | |
3066 | (source (origin | |
3067 | (method url-fetch) | |
3068 | ;; This package has been removed from CRAN, so we can | |
3069 | ;; only fetch it from the archives. | |
3070 | (uri (string-append "https://cran.r-project.org/src/" | |
3071 | "contrib/Archive/RSofia/RSofia_" | |
3072 | version ".tar.gz")) | |
3073 | (sha256 | |
3074 | (base32 | |
3075 | "0q931y9rcf6slb0s2lsxhgqrzy4yqwh8hb1124nxg0bjbxvjbihn")))) | |
3076 | (properties `((upstream-name . "RSofia"))) | |
3077 | (build-system r-build-system) | |
3078 | (propagated-inputs | |
3079 | `(("r-rcpp" ,r-rcpp))) | |
3080 | (home-page "https://cran.r-project.org/src/contrib/Archive/RSofia") | |
3081 | (synopsis "Port of sofia-ml to R") | |
3082 | (description "This package is a port of sofia-ml to R. Sofia-ml is a | |
3083 | suite of fast incremental algorithms for machine learning that can be used for | |
3084 | training models for classification or ranking.") | |
3085 | (license license:asl2.0))) | |
738dda83 | 3086 | |
3699383e RW |
3087 | (define-public r-xts |
3088 | (package | |
3089 | (name "r-xts") | |
cea8a607 | 3090 | (version "0.11-2") |
3699383e RW |
3091 | (source |
3092 | (origin | |
3093 | (method url-fetch) | |
3094 | (uri (cran-uri "xts" version)) | |
3095 | (sha256 | |
3096 | (base32 | |
cea8a607 | 3097 | "1f0kxrvn13py3hk2gh2m56cqm39x3bqp1i350r5viddacrm2yxqj")))) |
3699383e RW |
3098 | (build-system r-build-system) |
3099 | (propagated-inputs `(("r-zoo" ,r-zoo))) | |
3699383e RW |
3100 | (home-page "https://github.com/joshuaulrich/xts") |
3101 | (synopsis "Extensible time series") | |
3102 | (description | |
3103 | "This package provides for uniform handling of R's different time-based | |
3104 | data classes by extending @code{zoo}, maximizing native format information | |
3105 | preservation and allowing for user-level customization and extension, while | |
3106 | simplifying cross-class interoperability.") | |
3107 | (license license:gpl2+))) | |
b72b42cf RW |
3108 | |
3109 | (define-public r-performanceanalytics | |
3110 | (package | |
3111 | (name "r-performanceanalytics") | |
081d143d | 3112 | (version "1.5.2") |
b72b42cf RW |
3113 | (source |
3114 | (origin | |
3115 | (method url-fetch) | |
3116 | (uri (cran-uri "PerformanceAnalytics" version)) | |
3117 | (sha256 | |
3118 | (base32 | |
081d143d | 3119 | "01bgm57z079g6r505w3bj293zkbd49fwa8sg55z87vizwavipml6")))) |
b72b42cf RW |
3120 | (properties |
3121 | `((upstream-name . "PerformanceAnalytics"))) | |
3122 | (build-system r-build-system) | |
3123 | (propagated-inputs | |
081d143d RW |
3124 | `(("r-quadprog" ,r-quadprog) |
3125 | ("r-xts" ,r-xts) | |
b72b42cf | 3126 | ("r-zoo" ,r-zoo))) |
d062957a | 3127 | (home-page "https://r-forge.r-project.org/projects/returnanalytics/") |
b72b42cf RW |
3128 | (synopsis "Econometric tools for performance and risk analysis") |
3129 | (description "This is a collection of econometric functions for | |
3130 | performance and risk analysis. This package aims to aid practitioners and | |
3131 | researchers in utilizing the latest research in analysis of non-normal return | |
3132 | streams. In general, it is most tested on return (rather than price) data on | |
3133 | a regular scale, but most functions will work with irregular return data as | |
3134 | well, and increasing numbers of functions will work with P&L or price data | |
3135 | where possible.") | |
3136 | ;; Either version may be picked. | |
3137 | (license (list license:gpl2 license:gpl3)))) | |
018cf270 RW |
3138 | |
3139 | (define-public r-laeken | |
3140 | (package | |
3141 | (name "r-laeken") | |
ed46a05c | 3142 | (version "0.5.0") |
018cf270 RW |
3143 | (source |
3144 | (origin | |
3145 | (method url-fetch) | |
3146 | (uri (cran-uri "laeken" version)) | |
3147 | (sha256 | |
3148 | (base32 | |
ed46a05c | 3149 | "1g9r3y7b0gl91hijk9awa8rjk97mqpkxinzq2cgmx0m38ng9ylpa")))) |
018cf270 RW |
3150 | (build-system r-build-system) |
3151 | (propagated-inputs | |
3152 | `(("r-boot" ,r-boot) | |
3153 | ("r-mass" ,r-mass))) | |
e9960d8c | 3154 | (home-page "https://cran.r-project.org/web/packages/laeken/") |
018cf270 RW |
3155 | (synopsis "Estimation of indicators on social exclusion and poverty") |
3156 | (description "This package provides tools for the estimation of indicators | |
3157 | on social exclusion and poverty, as well as an implementation of Pareto tail | |
3158 | modeling for empirical income distributions.") | |
3159 | (license license:gpl2+))) | |
e5c17b8d RW |
3160 | |
3161 | (define-public r-vcd | |
3162 | (package | |
3163 | (name "r-vcd") | |
2960f965 | 3164 | (version "1.4-4") |
e5c17b8d RW |
3165 | (source |
3166 | (origin | |
3167 | (method url-fetch) | |
3168 | (uri (cran-uri "vcd" version)) | |
3169 | (sha256 | |
3170 | (base32 | |
2960f965 | 3171 | "1lp99h0wvsc61l1dgcqjxdrcgpgw88ak430cdsv43kmm43qssqd5")))) |
e5c17b8d RW |
3172 | (build-system r-build-system) |
3173 | (propagated-inputs | |
3174 | `(("r-colorspace" ,r-colorspace) | |
3175 | ("r-lmtest" ,r-lmtest) | |
3176 | ("r-mass" ,r-mass))) | |
e9960d8c | 3177 | (home-page "https://cran.r-project.org/web/packages/vcd/") |
e5c17b8d RW |
3178 | (synopsis "Visualizing categorical data") |
3179 | (description "This package provides visualization techniques, data sets, | |
3180 | summary and inference procedures aimed particularly at categorical data. | |
3181 | Special emphasis is given to highly extensible grid graphics. The package was | |
3182 | originally inspired by the book \"Visualizing Categorical Data\" by Michael | |
3183 | Friendly and is now the main support package for a new book, \"Discrete Data | |
3184 | Analysis with R\" by Michael Friendly and David Meyer (2015).") | |
3185 | (license license:gpl2))) | |
ae164260 RW |
3186 | |
3187 | (define-public r-ica | |
3188 | (package | |
3189 | (name "r-ica") | |
fabf0993 | 3190 | (version "1.0-2") |
ae164260 RW |
3191 | (source |
3192 | (origin | |
3193 | (method url-fetch) | |
3194 | (uri (cran-uri "ica" version)) | |
3195 | (sha256 | |
3196 | (base32 | |
fabf0993 | 3197 | "0ya1nph1zwhad0bfz4yxs27kl45yk1dhnphdlrq34p8pqrpmj8g7")))) |
ae164260 | 3198 | (build-system r-build-system) |
e9960d8c | 3199 | (home-page "https://cran.r-project.org/web/packages/ica/") |
ae164260 RW |
3200 | (synopsis "Independent component analysis") |
3201 | (description "This package provides tools for @dfn{Independent Component | |
3202 | Analysis} (ICA) using various algorithms: FastICA, | |
3203 | Information-Maximization (Infomax), and @dfn{Joint Approximate Diagonalization | |
3204 | of Eigenmatrices} (JADE).") | |
3205 | (license license:gpl2+))) | |
bf025ff6 RW |
3206 | |
3207 | (define-public r-dtw | |
3208 | (package | |
3209 | (name "r-dtw") | |
cda93e83 | 3210 | (version "1.20-1") |
bf025ff6 RW |
3211 | (source |
3212 | (origin | |
3213 | (method url-fetch) | |
3214 | (uri (cran-uri "dtw" version)) | |
3215 | (sha256 | |
3216 | (base32 | |
cda93e83 | 3217 | "1w301xwizncy5r8v9rwwdxfshydgp3l1pnjla1fjn6n8lx3imjj3")))) |
bf025ff6 RW |
3218 | (build-system r-build-system) |
3219 | (propagated-inputs `(("r-proxy" ,r-proxy))) | |
3220 | (home-page "http://dtw.r-forge.r-project.org/") | |
3221 | (synopsis "Dynamic Time Warping Algorithms") | |
3222 | (description "This package provides a comprehensive implementation of | |
3223 | @dfn{dynamic time warping} (DTW) algorithms in R. DTW computes the | |
3224 | optimal (least cumulative distance) alignment between points of two time | |
3225 | series. Common DTW variants covered include local (slope) and global (window) | |
3226 | constraints, subsequence matches, arbitrary distance definitions, | |
3227 | normalizations, minimum variance matching, and so on.") | |
3228 | (license license:gpl2+))) | |
15ef07f0 RW |
3229 | |
3230 | (define-public r-sdmtools | |
3231 | (package | |
3232 | (name "r-sdmtools") | |
3233 | (version "1.1-221") | |
3234 | (source | |
3235 | (origin | |
3236 | (method url-fetch) | |
3237 | (uri (cran-uri "SDMTools" version)) | |
3238 | (sha256 | |
3239 | (base32 | |
3240 | "1kacrpamshv7wz83yn45sfbw4m9c44xrrngzcklnwx8gcxx2knm6")))) | |
3241 | (properties `((upstream-name . "SDMTools"))) | |
3242 | (build-system r-build-system) | |
3243 | (propagated-inputs `(("r-r-utils" ,r-r-utils))) | |
3244 | (home-page "http://www.rforge.net/SDMTools/") | |
3245 | (synopsis "Species distribution modelling tools") | |
3246 | (description "This packages provides a set of tools for post processing | |
3247 | the outcomes of species distribution modeling exercises. It includes novel | |
3248 | methods for comparing models and tracking changes in distributions through | |
3249 | time. It further includes methods for visualizing outcomes, selecting | |
3250 | thresholds, calculating measures of accuracy and landscape fragmentation | |
3251 | statistics, etc.") | |
3252 | (license license:gpl3+))) | |
ae3f2079 RW |
3253 | |
3254 | (define-public r-scatterplot3d | |
3255 | (package | |
3256 | (name "r-scatterplot3d") | |
5ade82bb | 3257 | (version "0.3-41") |
ae3f2079 RW |
3258 | (source |
3259 | (origin | |
3260 | (method url-fetch) | |
3261 | (uri (cran-uri "scatterplot3d" version)) | |
3262 | (sha256 | |
3263 | (base32 | |
5ade82bb | 3264 | "152xqz9c70qab86mpgng049gxsg5f4fpf1m8dh93fb9v1avjd0sc")))) |
ae3f2079 | 3265 | (build-system r-build-system) |
e9960d8c | 3266 | (home-page "https://cran.r-project.org/web/packages/scatterplot3d/") |
ae3f2079 RW |
3267 | (synopsis "3D scatter plot") |
3268 | (description "This package provides an implementation of scatter plots for | |
3269 | plotting. a three dimensional point cloud.") | |
3270 | (license license:gpl2))) | |
f90018e5 RW |
3271 | |
3272 | (define-public r-ggridges | |
3273 | (package | |
3274 | (name "r-ggridges") | |
16a39c2d | 3275 | (version "0.5.1") |
f90018e5 RW |
3276 | (source |
3277 | (origin | |
3278 | (method url-fetch) | |
3279 | (uri (cran-uri "ggridges" version)) | |
3280 | (sha256 | |
3281 | (base32 | |
16a39c2d | 3282 | "0dhwcpy785ac2ny5bjp284595nnybi3554wd0yffsli0vzf7ry01")))) |
f90018e5 RW |
3283 | (build-system r-build-system) |
3284 | (propagated-inputs | |
3285 | `(("r-ggplot2" ,r-ggplot2) | |
3286 | ("r-plyr" ,r-plyr) | |
0edd2fd1 RW |
3287 | ("r-scales" ,r-scales) |
3288 | ("r-withr" ,r-withr))) | |
f90018e5 RW |
3289 | (home-page "https://github.com/clauswilke/ggridges") |
3290 | (synopsis "Ridgeline plots in ggplot2") | |
3291 | (description | |
3292 | "Ridgeline plots provide a convenient way of visualizing changes in | |
3293 | distributions over time or space. This package enables the creation of such | |
3294 | plots in @code{ggplot2}.") | |
3295 | (license license:gpl2))) | |
007f6d98 RW |
3296 | |
3297 | (define-public r-ggjoy | |
3298 | (package | |
3299 | (name "r-ggjoy") | |
c36745cf | 3300 | (version "0.4.1") |
007f6d98 RW |
3301 | (source |
3302 | (origin | |
3303 | (method url-fetch) | |
3304 | (uri (cran-uri "ggjoy" version)) | |
3305 | (sha256 | |
3306 | (base32 | |
c36745cf | 3307 | "012md2m0jqfcccb933j423m3ck31v3p0pd41gjxpyg9082y7ixyj")))) |
007f6d98 RW |
3308 | (build-system r-build-system) |
3309 | (propagated-inputs | |
3310 | `(("r-ggplot2" ,r-ggplot2) | |
3311 | ("r-ggridges" ,r-ggridges))) | |
3312 | (home-page "https://github.com/clauswilke/ggjoy") | |
3313 | (synopsis "Joyplots in ggplot2") | |
3314 | (description "Joyplots provide a convenient way of visualizing changes in | |
3315 | distributions over time or space. This package enables the creation of such | |
3316 | plots in @code{ggplot2}.") | |
3317 | (license license:gpl2))) | |
2976f304 RW |
3318 | |
3319 | (define-public r-cli | |
3320 | (package | |
3321 | (name "r-cli") | |
9e82d608 | 3322 | (version "1.0.1") |
2976f304 RW |
3323 | (source |
3324 | (origin | |
3325 | (method url-fetch) | |
3326 | (uri (cran-uri "cli" version)) | |
3327 | (sha256 | |
3328 | (base32 | |
9e82d608 | 3329 | "1r2yih4c0bdmbx0qrarlf0m1p5z30sri755zmdazsq2pw76zp07g")))) |
2976f304 RW |
3330 | (build-system r-build-system) |
3331 | (propagated-inputs | |
3332 | `(("r-assertthat" ,r-assertthat) | |
3333 | ("r-crayon" ,r-crayon))) | |
3334 | (home-page "https://github.com/r-lib/cli#readme") | |
3335 | (synopsis "Helpers for developing command line interfaces") | |
3336 | (description "This package provides a suite of tools designed to build | |
3337 | attractive command line interfaces (CLIs). It includes tools for drawing | |
3338 | rules, boxes, trees, and Unicode symbols with ASCII alternatives.") | |
3339 | (license license:expat))) | |
55577393 RW |
3340 | |
3341 | (define-public r-argparser | |
3342 | (package | |
3343 | (name "r-argparser") | |
3344 | (version "0.4") | |
3345 | (source | |
3346 | (origin | |
3347 | (method url-fetch) | |
3348 | (uri (cran-uri "argparser" version)) | |
3349 | (sha256 | |
3350 | (base32 | |
3351 | "0s1wxshx4jk69wfxhycx973q6y8cmqrfymyjklhq1i8xrj0kmmx9")))) | |
3352 | (build-system r-build-system) | |
3353 | (home-page "https://bitbucket.org/djhshih/argparser") | |
3354 | (synopsis "Command-line argument parser") | |
3355 | (description | |
3356 | "This package provides a cross-platform command-line argument parser | |
3357 | written purely in R with no external dependencies. It is useful with the | |
3358 | Rscript front-end and facilitates turning an R script into an executable | |
3359 | script.") | |
3360 | (license license:gpl3+))) | |
a3257d42 RW |
3361 | |
3362 | (define-public r-debugme | |
3363 | (package | |
3364 | (name "r-debugme") | |
3365 | (version "1.1.0") | |
3366 | (source | |
3367 | (origin | |
3368 | (method url-fetch) | |
3369 | (uri (cran-uri "debugme" version)) | |
3370 | (sha256 | |
3371 | (base32 | |
3372 | "1c9sg55zvf10h8198jdnpamm6f66lzw3c3jnmdp9ls6na0j0xbjd")))) | |
3373 | (build-system r-build-system) | |
3374 | (propagated-inputs `(("r-crayon" ,r-crayon))) | |
3375 | (home-page "https://github.com/r-lib/debugme#readme") | |
3376 | (synopsis "Debug R packages") | |
3377 | (description | |
3378 | "This package allows the user to specify debug messages as special string | |
3379 | constants, and control debugging of packages via environment variables.") | |
3380 | (license license:expat))) | |
2058e37d RW |
3381 | |
3382 | (define-public r-processx | |
3383 | (package | |
3384 | (name "r-processx") | |
0e87bf01 | 3385 | (version "3.2.1") |
2058e37d RW |
3386 | (source |
3387 | (origin | |
3388 | (method url-fetch) | |
3389 | (uri (cran-uri "processx" version)) | |
3390 | (sha256 | |
3391 | (base32 | |
0e87bf01 | 3392 | "1skjyi767avc3safajlj3ikk9lf11zzyjybdcmx8m9y59rf319ql")))) |
2058e37d RW |
3393 | (build-system r-build-system) |
3394 | (propagated-inputs | |
0e87bf01 RW |
3395 | `(("r-ps" ,r-ps) |
3396 | ("r-r6" ,r-r6))) | |
2058e37d RW |
3397 | (home-page "https://github.com/r-lib/processx3") |
3398 | (synopsis "Execute and control system processes") | |
3399 | (description | |
3400 | "This package provides portable tools to run system processes in the | |
3401 | background. It can check if a background process is running; wait on a | |
3402 | background process to finish; get the exit status of finished processes; kill | |
3403 | background processes and their children; restart processes. It can read the | |
3404 | standard output and error of the processes, using non-blocking connections. | |
3405 | @code{processx} can poll a process for standard output or error, with a | |
3406 | timeout. It can also poll several processes at once.") | |
3407 | (license license:expat))) | |
f285346a RW |
3408 | |
3409 | (define-public r-tsp | |
3410 | (package | |
3411 | (name "r-tsp") | |
127522c4 | 3412 | (version "1.1-6") |
f285346a RW |
3413 | (source |
3414 | (origin | |
3415 | (method url-fetch) | |
3416 | (uri (cran-uri "TSP" version)) | |
3417 | (sha256 | |
3418 | (base32 | |
127522c4 | 3419 | "1ym97xl2icjpfkrici0wig29w06bb704hp51v7h5liygjlwpkhlc")))) |
f285346a RW |
3420 | (properties `((upstream-name . "TSP"))) |
3421 | (build-system r-build-system) | |
3422 | (propagated-inputs `(("r-foreach" ,r-foreach))) | |
3423 | (home-page "https://cran.r-project.org/web/packages/TSP/") | |
3424 | (synopsis "Traveling salesperson problem (TSP)") | |
3425 | (description "This package provides basic infrastructure and some | |
3426 | algorithms for the @dfn{traveling salesperson problem}(TSP) (also known as the | |
3427 | traveling salesman problem).") | |
3428 | (license license:gpl3))) | |
ffb59bce RW |
3429 | |
3430 | (define-public r-qap | |
3431 | (package | |
3432 | (name "r-qap") | |
3433 | (version "0.1-1") | |
3434 | (source | |
3435 | (origin | |
3436 | (method url-fetch) | |
3437 | (uri (cran-uri "qap" version)) | |
3438 | (sha256 | |
3439 | (base32 | |
3440 | "0d2d1ni1camixyi45lfy00f4pn3p063k7bsi8gj5scp6n15mdgb0")))) | |
3441 | (build-system r-build-system) | |
3442 | (native-inputs `(("gfortran" ,gfortran))) | |
d062957a | 3443 | (home-page "https://cran.r-project.org/web/packages/qap/") |
ffb59bce RW |
3444 | (synopsis "Heuristics for the quadratic assignment problem (QAP)") |
3445 | (description "This package implements heuristics for the @dfn{quadratic | |
3446 | assignment problem} (QAP). Currently only a simulated annealing heuristic is | |
3447 | available.") | |
3448 | (license license:gpl3))) | |
7fe49f2a RW |
3449 | |
3450 | (define-public r-gclus | |
3451 | (package | |
3452 | (name "r-gclus") | |
111516f9 | 3453 | (version "1.3.2") |
7fe49f2a RW |
3454 | (source |
3455 | (origin | |
3456 | (method url-fetch) | |
3457 | (uri (cran-uri "gclus" version)) | |
3458 | (sha256 | |
3459 | (base32 | |
111516f9 | 3460 | "1cz0g0i972955hhaji30rx8448x7f3as7z1sww9i5h86ybgirilw")))) |
7fe49f2a RW |
3461 | (build-system r-build-system) |
3462 | (propagated-inputs `(("r-cluster" ,r-cluster))) | |
d062957a | 3463 | (home-page "https://cran.r-project.org/web/packages/gclus/") |
7fe49f2a RW |
3464 | (synopsis "Clustering graphics") |
3465 | (description "This package orders panels in scatterplot matrices and | |
3466 | parallel coordinate displays by some merit index. It contains various indices | |
3467 | of merit, ordering functions, and enhanced versions of @code{pairs} and | |
3468 | @code{parcoord} which color panels according to their merit level.") | |
3469 | (license license:gpl2+))) | |
8e5e26d2 RW |
3470 | |
3471 | (define-public r-webshot | |
3472 | (package | |
3473 | (name "r-webshot") | |
8871a513 | 3474 | (version "0.5.1") |
8e5e26d2 RW |
3475 | (source |
3476 | (origin | |
3477 | (method url-fetch) | |
3478 | (uri (cran-uri "webshot" version)) | |
3479 | (sha256 | |
3480 | (base32 | |
8871a513 | 3481 | "08sb1xi376pfy1vwilk2d68zljsg9yiv04n2dkqz383gdhh0sxdr")))) |
8e5e26d2 RW |
3482 | (build-system r-build-system) |
3483 | (propagated-inputs | |
8871a513 RW |
3484 | `(("r-callr" ,r-callr) |
3485 | ("r-jsonlite" ,r-jsonlite) | |
3486 | ("r-magrittr" ,r-magrittr))) | |
8e5e26d2 RW |
3487 | (home-page "https://github.com/wch/webshot/") |
3488 | (synopsis "Take screenshots of web pages") | |
3489 | (description | |
3490 | "Webshot makes it easy to take screenshots of web pages from within R. | |
3491 | It can also run Shiny applications locally and take screenshots of the | |
3492 | application; and it can render and screenshot static as well as interactive R | |
3493 | Markdown documents.") | |
3494 | (license license:gpl2))) | |
2e9d187b RW |
3495 | |
3496 | (define-public r-seriation | |
3497 | (package | |
3498 | (name "r-seriation") | |
3499 | (version "1.2-3") | |
3500 | (source | |
3501 | (origin | |
3502 | (method url-fetch) | |
3503 | (uri (cran-uri "seriation" version)) | |
3504 | (sha256 | |
3505 | (base32 | |
3506 | "1q6hw4hjw224b4y0dc0j630v2pgj6sn455nwkilb70w8k31hpk92")))) | |
3507 | (build-system r-build-system) | |
3508 | (propagated-inputs | |
3509 | `(("r-cluster" ,r-cluster) | |
3510 | ("r-colorspace" ,r-colorspace) | |
3511 | ("r-dendextend" ,r-dendextend) | |
3512 | ("r-gclus" ,r-gclus) | |
3513 | ("r-gplots" ,r-gplots) | |
3514 | ("r-mass" ,r-mass) | |
3515 | ("r-qap" ,r-qap) | |
3516 | ("r-registry" ,r-registry) | |
3517 | ("r-tsp" ,r-tsp))) | |
3518 | (native-inputs `(("gfortran" ,gfortran))) | |
3519 | (home-page "http://s2.smu.edu/IDA/seriation/") | |
3520 | (synopsis "Infrastructure for ordering objects using seriation") | |
3521 | (description | |
3522 | "This package provides infrastructure for seriation with an | |
3523 | implementation of several seriation/sequencing techniques to reorder matrices, | |
3524 | dissimilarity matrices, and dendrograms. It also provides (optimally) | |
3525 | reordered heatmaps, color images and clustering visualizations like | |
3526 | dissimilarity plots, and visual assessment of cluster tendency plots (VAT and | |
3527 | iVAT).") | |
3528 | (license license:gpl3))) | |
e9e78d2c | 3529 | |
f6d2b45c RW |
3530 | (define-public r-xfun |
3531 | (package | |
3532 | (name "r-xfun") | |
a8de3090 | 3533 | (version "0.4") |
f6d2b45c RW |
3534 | (source |
3535 | (origin | |
3536 | (method url-fetch) | |
3537 | (uri (cran-uri "xfun" version)) | |
3538 | (sha256 | |
3539 | (base32 | |
a8de3090 | 3540 | "0991ywgc2dsraba91kkj37akhfzhzn02cnz7c88hhdis9kag3pwv")))) |
f6d2b45c RW |
3541 | (build-system r-build-system) |
3542 | (home-page "https://github.com/yihui/xfun") | |
3543 | (synopsis "Miscellaneous functions") | |
3544 | (description | |
3545 | "This package provides miscellaneous functions commonly used in other | |
3546 | packages maintained by Yihui Xie.") | |
3547 | (license license:expat))) | |
f2442968 RW |
3548 | |
3549 | (define-public r-utf8 | |
3550 | (package | |
3551 | (name "r-utf8") | |
65ea783f | 3552 | (version "1.1.4") |
f2442968 RW |
3553 | (source |
3554 | (origin | |
3555 | (method url-fetch) | |
3556 | (uri (cran-uri "utf8" version)) | |
3557 | (sha256 | |
3558 | (base32 | |
65ea783f | 3559 | "0m0ywg8k3blfiahxvh1i4zn9dksrlc937d2lbza5fc38zjnrrnpn")))) |
f2442968 RW |
3560 | (build-system r-build-system) |
3561 | (home-page "https://github.com/patperry/r-utf8") | |
3562 | (synopsis "Unicode text processing") | |
3563 | (description | |
3564 | "This package provides tools to process and print UTF-8 encoded | |
3565 | international text (Unicode). Input, validate, normalize, encode, format, and | |
3566 | display.") | |
3567 | (license license:asl2.0))) | |
c555ccab RW |
3568 | |
3569 | (define-public r-pillar | |
3570 | (package | |
3571 | (name "r-pillar") | |
fc00a1f0 | 3572 | (version "1.3.1") |
c555ccab RW |
3573 | (source |
3574 | (origin | |
3575 | (method url-fetch) | |
3576 | (uri (cran-uri "pillar" version)) | |
3577 | (sha256 | |
3578 | (base32 | |
fc00a1f0 | 3579 | "1xnbb9sr5wn9dmp6m7cr4z7i6pmjvyabnfcx6x7i7mvdjmgvaf5k")))) |
c555ccab RW |
3580 | (build-system r-build-system) |
3581 | (propagated-inputs | |
3582 | `(("r-cli" ,r-cli) | |
3583 | ("r-crayon" ,r-crayon) | |
6f5b157e | 3584 | ("r-fansi" ,r-fansi) |
c555ccab RW |
3585 | ("r-rlang" ,r-rlang) |
3586 | ("r-utf8" ,r-utf8))) | |
3587 | (home-page "https://github.com/r-lib/pillar") | |
3588 | (synopsis "Coloured formatting for columns") | |
3589 | (description | |
3590 | "This package provides a @code{pillar} generic designed for formatting | |
3591 | columns of data using the full range of colours provided by modern | |
3592 | terminals.") | |
3593 | (license license:gpl3))) | |
1c791925 RW |
3594 | |
3595 | (define-public r-uuid | |
3596 | (package | |
3597 | (name "r-uuid") | |
3598 | (version "0.1-2") | |
3599 | (source | |
3600 | (origin | |
3601 | (method url-fetch) | |
3602 | (uri (cran-uri "uuid" version)) | |
3603 | (sha256 | |
3604 | (base32 | |
3605 | "1gmisd630fc8ybg845hbg13wmm3pk3npaamrh5wqbc1nqd6p0wfx")))) | |
3606 | (build-system r-build-system) | |
3607 | (home-page "http://www.rforge.net/uuid") | |
3608 | (synopsis "Tools for generating and handling of UUIDs") | |
3609 | (description | |
3610 | "This package provides tools for generating and handling of | |
3611 | @dfn{Universally Unique Identifiers} (UUIDs).") | |
3612 | (license license:expat))) | |
846f4c23 RW |
3613 | |
3614 | (define-public r-tinytex | |
3615 | (package | |
3616 | (name "r-tinytex") | |
7e9e9c9c | 3617 | (version "0.10") |
846f4c23 RW |
3618 | (source |
3619 | (origin | |
3620 | (method url-fetch) | |
3621 | (uri (cran-uri "tinytex" version)) | |
3622 | (sha256 | |
3623 | (base32 | |
7e9e9c9c | 3624 | "02bz8zaka5j51zin976n5nmk19a0390d0gwgj4zrbh48hl313rqm")))) |
846f4c23 | 3625 | (build-system r-build-system) |
8b0701d9 TGR |
3626 | (propagated-inputs |
3627 | `(("r-xfun" ,r-xfun))) | |
846f4c23 RW |
3628 | (home-page "https://github.com/yihui/tinytex") |
3629 | (synopsis "Helper functions for TeX Live and compiling LaTeX documents") | |
3630 | (description | |
3631 | "This package provides helper functions to install and maintain the LaTeX | |
3632 | distribution named TinyTeX, a lightweight, cross-platform, portable, and | |
3633 | easy-to-maintain version of TeX Live. This package also contains helper | |
3634 | functions to compile LaTeX documents, and install missing LaTeX packages | |
3635 | automatically.") | |
3636 | (license license:expat))) | |
4376166b RW |
3637 | |
3638 | (define-public r-metap | |
3639 | (package | |
3640 | (name "r-metap") | |
e32368c1 | 3641 | (version "1.0") |
4376166b RW |
3642 | (source |
3643 | (origin | |
3644 | (method url-fetch) | |
3645 | (uri (cran-uri "metap" version)) | |
3646 | (sha256 | |
3647 | (base32 | |
e32368c1 | 3648 | "18rzvqfzyk8fn54gjvy2qd21nk9w69j7ihww477ma3f3ab6i982h")))) |
4376166b RW |
3649 | (build-system r-build-system) |
3650 | (propagated-inputs | |
e32368c1 RW |
3651 | `(("r-lattice" ,r-lattice) |
3652 | ("r-rdpack" ,r-rdpack))) | |
4376166b RW |
3653 | (home-page "http://www.dewey.myzen.co.uk/meta/meta.html") |
3654 | (synopsis "Meta-analysis of significance values") | |
3655 | (description | |
3656 | "The canonical way to perform meta-analysis involves using effect sizes. | |
3657 | When they are not available this package provides a number of methods for | |
3658 | meta-analysis of significance values including the methods of Edgington, | |
3659 | Fisher, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate | |
3660 | published results; and a routine for graphical display.") | |
3661 | (license license:gpl2))) | |
5f4565b1 RW |
3662 | |
3663 | (define-public r-network | |
3664 | (package | |
3665 | (name "r-network") | |
92edaaea | 3666 | (version "1.13.0.1") |
5f4565b1 RW |
3667 | (source |
3668 | (origin | |
3669 | (method url-fetch) | |
3670 | (uri (cran-uri "network" version)) | |
3671 | (sha256 | |
3672 | (base32 | |
92edaaea | 3673 | "1bbkbqkqf1d7irfwh08c13c2pfypir1ssvlqrln83irqns1ikdv0")))) |
5f4565b1 | 3674 | (build-system r-build-system) |
40862677 | 3675 | (home-page "https://statnet.org/") |
5f4565b1 RW |
3676 | (synopsis "Classes for relational data") |
3677 | (description | |
3678 | "This package provides tools to create and modify network objects. The | |
3679 | @code{network} class can represent a range of relational data types, and | |
3680 | supports arbitrary vertex/edge/graph attributes.") | |
3681 | (license license:gpl2+))) | |
07a2f34d RW |
3682 | |
3683 | (define-public r-statnet-common | |
3684 | (package | |
3685 | (name "r-statnet-common") | |
9d831327 | 3686 | (version "4.2.0") |
07a2f34d RW |
3687 | (source |
3688 | (origin | |
3689 | (method url-fetch) | |
3690 | (uri (cran-uri "statnet.common" version)) | |
3691 | (sha256 | |
3692 | (base32 | |
9d831327 | 3693 | "0q942g6kqmqxfss1cxb3yg8y5r1k1h5cyy99s1cfisrn6hqc6xhi")))) |
07a2f34d RW |
3694 | (properties |
3695 | `((upstream-name . "statnet.common"))) | |
3696 | (build-system r-build-system) | |
1268a995 RW |
3697 | (propagated-inputs |
3698 | `(("r-coda" ,r-coda))) | |
40862677 | 3699 | (home-page "https://statnet.org") |
07a2f34d RW |
3700 | (synopsis "R scripts and utilities used by the Statnet software") |
3701 | (description "This package provides non-statistical utilities used by the | |
3702 | software developed by the Statnet Project.") | |
3703 | (license license:gpl3))) | |
1088744d RW |
3704 | |
3705 | (define-public r-sna | |
3706 | (package | |
3707 | (name "r-sna") | |
3708 | (version "2.4") | |
3709 | (source | |
3710 | (origin | |
3711 | (method url-fetch) | |
3712 | (uri (cran-uri "sna" version)) | |
3713 | (sha256 | |
3714 | (base32 | |
3715 | "1ks8819qvpdfansfqj9p32s1rhvl26frvbi78m4rx1wd1qcv74i2")))) | |
3716 | (build-system r-build-system) | |
3717 | (propagated-inputs | |
3718 | `(("r-network" ,r-network) | |
3719 | ("r-statnet-common" ,r-statnet-common))) | |
40862677 | 3720 | (home-page "https://statnet.org") |
1088744d RW |
3721 | (synopsis "Tools for social network analysis") |
3722 | (description | |
3723 | "This package provides a range of tools for social network analysis, | |
3724 | including node and graph-level indices, structural distance and covariance | |
3725 | methods, structural equivalence detection, network regression, random graph | |
3726 | generation, and 2D/3D network visualization.") | |
3727 | (license license:gpl2+))) | |
93c21ddc RW |
3728 | |
3729 | (define-public r-ttr | |
3730 | (package | |
3731 | (name "r-ttr") | |
534bf85b | 3732 | (version "0.23-4") |
93c21ddc RW |
3733 | (source |
3734 | (origin | |
3735 | (method url-fetch) | |
3736 | (uri (cran-uri "TTR" version)) | |
3737 | (sha256 | |
3738 | (base32 | |
534bf85b | 3739 | "18mzyv6cmxmqyqsfwlx2b2k055887mfgc2jgj8xkn8c6m56n05zb")))) |
93c21ddc RW |
3740 | (properties `((upstream-name . "TTR"))) |
3741 | (build-system r-build-system) | |
3742 | (propagated-inputs | |
3743 | `(("r-curl" ,r-curl) | |
3744 | ("r-xts" ,r-xts) | |
3745 | ("r-zoo" ,r-zoo))) | |
3746 | (native-inputs `(("gfortran" ,gfortran))) | |
3747 | (home-page "https://github.com/joshuaulrich/TTR") | |
3748 | (synopsis "Technical trading rules") | |
3749 | (description | |
3750 | "This package provides functions and data to construct technical trading | |
3751 | rules with R.") | |
3752 | (license license:gpl2))) | |
0b64332c RW |
3753 | |
3754 | (define-public r-leaps | |
3755 | (package | |
3756 | (name "r-leaps") | |
3757 | (version "3.0") | |
3758 | (source | |
3759 | (origin | |
3760 | (method url-fetch) | |
3761 | (uri (cran-uri "leaps" version)) | |
3762 | (sha256 | |
3763 | (base32 | |
3764 | "11gjmn1azrjw5xlvdb4gknj9985kck9x8zb9np1rnk2smp6pka2m")))) | |
3765 | (build-system r-build-system) | |
3766 | (native-inputs `(("gfortran" ,gfortran))) | |
d062957a | 3767 | (home-page "https://cran.r-project.org/web/packages/leaps/") |
0b64332c RW |
3768 | (synopsis "Regression subset selection") |
3769 | (description | |
3770 | "This package provides tools for regression subset selection, including | |
3771 | exhaustive search.") | |
3772 | (license license:gpl2+))) | |
d3cb62e5 RW |
3773 | |
3774 | (define-public r-splus2r | |
3775 | (package | |
3776 | (name "r-splus2r") | |
3777 | (version "1.2-2") | |
3778 | (source | |
3779 | (origin | |
3780 | (method url-fetch) | |
3781 | (uri (cran-uri "splus2R" version)) | |
3782 | (sha256 | |
3783 | (base32 | |
3784 | "0xrbj8vxy0pc6hl7m8abv71d3hjw47cl51s7j7priadyqczkq6sz")))) | |
3785 | (properties `((upstream-name . "splus2R"))) | |
3786 | (build-system r-build-system) | |
3787 | (native-inputs `(("gfortran" ,gfortran))) | |
d062957a | 3788 | (home-page "https://cran.r-project.org/web/packages/splus2R/") |
d3cb62e5 RW |
3789 | (synopsis "Supplemental S-PLUS functionality in R") |
3790 | (description | |
3791 | "Currently there are many functions in S-PLUS that are missing in R. To | |
3792 | facilitate the conversion of S-PLUS packages to R packages, this package | |
3793 | provides some missing S-PLUS functionality in R.") | |
3794 | (license license:gpl2))) | |
034ac9d6 RW |
3795 | |
3796 | (define-public r-ifultools | |
3797 | (package | |
3798 | (name "r-ifultools") | |
3799 | (version "2.0-4") | |
3800 | (source | |
3801 | (origin | |
3802 | (method url-fetch) | |
3803 | (uri (cran-uri "ifultools" version)) | |
3804 | (sha256 | |
3805 | (base32 | |
3806 | "0pv2msaa1rmj8csxdclzi2jwg9pfdvh87blj9j3xa3myisglq092")))) | |
3807 | (build-system r-build-system) | |
3808 | (propagated-inputs | |
3809 | `(("r-mass" ,r-mass) | |
3810 | ("r-splus2r" ,r-splus2r))) | |
d062957a | 3811 | (home-page "https://cran.r-project.org/web/packages/ifultools/") |
034ac9d6 RW |
3812 | (synopsis "Insightful research tools") |
3813 | (description "This package provides C code used by the wmtsa, fractal, and | |
3814 | sapa R packages.") | |
3815 | (license license:gpl2))) | |
0be7effe RW |
3816 | |
3817 | (define-public r-sapa | |
3818 | (package | |
3819 | (name "r-sapa") | |
3820 | (version "2.0-2") | |
3821 | (source | |
3822 | (origin | |
3823 | (method url-fetch) | |
3824 | (uri (cran-uri "sapa" version)) | |
3825 | (sha256 | |
3826 | (base32 | |
3827 | "056xlh14dnzq4x7sbp7ff2k61jxy7110a742b502vz549qfrr5ds")))) | |
3828 | (build-system r-build-system) | |
3829 | (propagated-inputs | |
3830 | `(("r-ifultools" ,r-ifultools) | |
3831 | ("r-splus2r" ,r-splus2r))) | |
d062957a | 3832 | (home-page "https://cran.r-project.org/web/packages/sapa/") |
0be7effe RW |
3833 | (synopsis "Spectral analysis for physical applications") |
3834 | (description "This package provides software for the book Spectral | |
3835 | Analysis for Physical Applications, Donald B. Percival and Andrew T. Walden, | |
3836 | Cambridge University Press, 1993.") | |
3837 | (license license:gpl2))) | |
dceb1592 | 3838 | |
3a4c6288 RW |
3839 | (define-public r-aggregation |
3840 | (package | |
3841 | (name "r-aggregation") | |
3842 | (version "1.0.1") | |
3843 | (source | |
3844 | (origin | |
3845 | (method url-fetch) | |
3846 | (uri (cran-uri "aggregation" version)) | |
3847 | (sha256 | |
3848 | (base32 | |
3849 | "0j9g604m2ccc7hcy02539yja9cf3xcbl25gvp838bp4x8w18my46")))) | |
3850 | (build-system r-build-system) | |
3851 | (home-page "https://cran.r-project.org/web/packages/aggregation/") | |
3852 | (synopsis "Methods for p-value aggregation") | |
3853 | (description | |
3854 | "This package contains functionality for performing the following methods | |
3855 | of p-value aggregation: Fisher's method, the Lancaster method (weighted | |
3856 | Fisher's method), and Sidak correction.") | |
3857 | (license license:gpl3))) | |
3858 | ||
dceb1592 RW |
3859 | (define-public r-quantmod |
3860 | (package | |
3861 | (name "r-quantmod") | |
d087f47d | 3862 | (version "0.4-13") |
dceb1592 RW |
3863 | (source |
3864 | (origin | |
3865 | (method url-fetch) | |
3866 | (uri (cran-uri "quantmod" version)) | |
3867 | (sha256 | |
3868 | (base32 | |
d087f47d | 3869 | "16aldg96z7amp5mr90nb8127yy04gxsihfr26km5p3cx3j117yv0")))) |
dceb1592 RW |
3870 | (build-system r-build-system) |
3871 | (propagated-inputs | |
3872 | `(("r-curl" ,r-curl) | |
3873 | ("r-ttr" ,r-ttr) | |
3874 | ("r-xts" ,r-xts) | |
3875 | ("r-zoo" ,r-zoo))) | |
d062957a | 3876 | (home-page "https://cran.r-project.org/web/packages/quantmod/") |
dceb1592 RW |
3877 | (synopsis "Quantitative financial modelling framework") |
3878 | (description "This package provides a quantitative financial modelling | |
3879 | framework to allow users to specify, build, trade, and analyse quantitative | |
3880 | financial trading strategies.") | |
3881 | (license license:gpl3))) | |
b6dc3255 RW |
3882 | |
3883 | (define-public r-tseries | |
3884 | (package | |
3885 | (name "r-tseries") | |
7abb15f2 | 3886 | (version "0.10-46") |
b6dc3255 RW |
3887 | (source |
3888 | (origin | |
3889 | (method url-fetch) | |
3890 | (uri (cran-uri "tseries" version)) | |
3891 | (sha256 | |
3892 | (base32 | |
7abb15f2 | 3893 | "08kjw0bfj5gfcrxpblwqxwna8a5g9gnr7ya61qb02r263pyhm50j")))) |
b6dc3255 RW |
3894 | (build-system r-build-system) |
3895 | (propagated-inputs | |
3896 | `(("r-quadprog" ,r-quadprog) | |
3897 | ("r-quantmod" ,r-quantmod) | |
3898 | ("r-zoo" ,r-zoo))) | |
3899 | (native-inputs | |
3900 | `(("gfortran" ,gfortran))) | |
d062957a | 3901 | (home-page "https://cran.r-project.org/web/packages/tseries/") |
b6dc3255 RW |
3902 | (synopsis "Time series analysis and computational finance") |
3903 | (description | |
3904 | "This package provides functions relating to time series analysis and | |
3905 | computational finance.") | |
3906 | (license license:gpl2))) | |
a2c079a7 RW |
3907 | |
3908 | (define-public r-wmtsa | |
3909 | (package | |
3910 | (name "r-wmtsa") | |
3911 | (version "2.0-3") | |
3912 | (source | |
3913 | (origin | |
3914 | (method url-fetch) | |
3915 | (uri (cran-uri "wmtsa" version)) | |
3916 | (sha256 | |
3917 | (base32 | |
3918 | "1q436krz5p1f4a7a7sya6a9rh9x9mi8zzcgq66gbk9w9w4hcqcj6")))) | |
3919 | (build-system r-build-system) | |
3920 | (propagated-inputs | |
3921 | `(("r-ifultools" ,r-ifultools) | |
3922 | ("r-mass" ,r-mass) | |
3923 | ("r-splus2r" ,r-splus2r))) | |
d062957a | 3924 | (home-page "https://cran.r-project.org/web/packages/wmtsa/") |
a2c079a7 RW |
3925 | (synopsis "Wavelet methods for time series analysis") |
3926 | (description | |
3927 | "This package provides software to accompany the book \"Wavelet Methods | |
3928 | for Time Series Analysis\", Donald B. Percival and Andrew T. Walden, Cambridge | |
3929 | University Press, 2000.") | |
3930 | (license license:gpl2))) | |
4993a02a RW |
3931 | |
3932 | (define-public r-tsa | |
3933 | (package | |
3934 | (name "r-tsa") | |
1fe9919a | 3935 | (version "1.2") |
4993a02a RW |
3936 | (source |
3937 | (origin | |
3938 | (method url-fetch) | |
3939 | (uri (cran-uri "TSA" version)) | |
3940 | (sha256 | |
3941 | (base32 | |
1fe9919a | 3942 | "0gjfqibwdznz0nka95k4fjm935svxjpnqfywwz403crn2lh30h6q")))) |
4993a02a RW |
3943 | (properties `((upstream-name . "TSA"))) |
3944 | (build-system r-build-system) | |
3945 | (propagated-inputs | |
3946 | `(("r-leaps" ,r-leaps) | |
3947 | ("r-locfit" ,r-locfit) | |
1fe9919a | 3948 | ("r-mgcv" ,r-mgcv))) |
4993a02a RW |
3949 | (home-page "http://www.stat.uiowa.edu/~kchan/TSA.htm") |
3950 | (synopsis "Time series analysis") | |
3951 | (description | |
3952 | "This package contains R functions and datasets detailed in the book | |
3953 | \"Time Series Analysis with Applications in R (second edition)\" by Jonathan | |
3954 | Cryer and Kung-Sik Chan.") | |
3955 | (license license:gpl2+))) | |
19da7fe3 RW |
3956 | |
3957 | (define-public r-extradistr | |
3958 | (package | |
3959 | (name "r-extradistr") | |
905734fd | 3960 | (version "1.8.10") |
19da7fe3 RW |
3961 | (source |
3962 | (origin | |
3963 | (method url-fetch) | |
3964 | (uri (cran-uri "extraDistr" version)) | |
3965 | (sha256 | |
3966 | (base32 | |
905734fd | 3967 | "00lvqp5bb3iak5myiz4rqm887bkq9sdh7aybmz84mmfni6q01m28")))) |
19da7fe3 RW |
3968 | (properties `((upstream-name . "extraDistr"))) |
3969 | (build-system r-build-system) | |
3970 | (propagated-inputs | |
3971 | `(("r-rcpp" ,r-rcpp))) | |
3972 | (home-page "https://github.com/twolodzko/extraDistr") | |
3973 | (synopsis "Additional univariate and multivariate distributions") | |
3974 | (description | |
3975 | "This package implements density, distribution functions, quantile | |
3976 | functions and random generation functions for a large number of univariate and | |
3977 | multivariate distributions.") | |
3978 | (license license:gpl2))) | |
5b25bc55 RW |
3979 | |
3980 | (define-public r-fractal | |
3981 | (package | |
3982 | (name "r-fractal") | |
3983 | (version "2.0-4") | |
3984 | (source | |
3985 | (origin | |
3986 | (method url-fetch) | |
3987 | (uri (cran-uri "fractal" version)) | |
3988 | (sha256 | |
3989 | (base32 | |
3990 | "18lr9z0gslvfc3z8vyj3krqj3bfhg60zv1fzinrwwkc4cpk1w7mp")))) | |
3991 | (build-system r-build-system) | |
3992 | (propagated-inputs | |
3993 | `(("r-ifultools" ,r-ifultools) | |
3994 | ("r-mass" ,r-mass) | |
3995 | ("r-sapa" ,r-sapa) | |
3996 | ("r-scatterplot3d" ,r-scatterplot3d) | |
3997 | ("r-splus2r" ,r-splus2r) | |
3998 | ("r-wmtsa" ,r-wmtsa))) | |
d062957a | 3999 | (home-page "https://cran.r-project.org/web/packages/fractal/") |
5b25bc55 RW |
4000 | (synopsis "Fractal time series modeling and analysis") |
4001 | (description | |
4002 | "This package provides tools for stochastic fractal and deterministic | |
4003 | chaotic time series analysis.") | |
4004 | (license license:gpl2))) | |
6615a364 RW |
4005 | |
4006 | (define-public r-urca | |
4007 | (package | |
4008 | (name "r-urca") | |
4009 | (version "1.3-0") | |
4010 | (source | |
4011 | (origin | |
4012 | (method url-fetch) | |
4013 | (uri (cran-uri "urca" version)) | |
4014 | (sha256 | |
4015 | (base32 | |
4016 | "1akaqwf3fvvvx4sgfn641fd4sj51s0701pvfl6s5hnz2k0iwh732")))) | |
4017 | (build-system r-build-system) | |
4018 | (propagated-inputs `(("r-nlme" ,r-nlme))) | |
4019 | (native-inputs `(("gfortran" ,gfortran))) | |
d062957a | 4020 | (home-page "https://cran.r-project.org/web/packages/urca/") |
6615a364 RW |
4021 | (synopsis "Unit root and cointegration tests for time series data") |
4022 | (description | |
4023 | "This package provides unit root and cointegration tests encountered in | |
4024 | applied econometric analysis.") | |
4025 | (license license:gpl2+))) | |
d32e5724 RW |
4026 | |
4027 | (define-public r-cubature | |
4028 | (package | |
4029 | (name "r-cubature") | |
5f1f1104 | 4030 | (version "2.0.3") |
d32e5724 RW |
4031 | (source |
4032 | (origin | |
4033 | (method url-fetch) | |
4034 | (uri (cran-uri "cubature" version)) | |
4035 | (sha256 | |
4036 | (base32 | |
5f1f1104 | 4037 | "0wvs80i4axj7pdcy9gjl08qzjbcjkldha94xy4gdxc34vgmh7gvr")))) |
d32e5724 RW |
4038 | (build-system r-build-system) |
4039 | (propagated-inputs | |
4040 | `(("r-rcpp" ,r-rcpp))) | |
4041 | (home-page "https://github.com/bnaras/cubature") | |
4042 | (synopsis "Adaptive multivariate integration over hypercubes") | |
4043 | (description | |
4044 | "This package is an R wrapper around the cubature C library for adaptive | |
4045 | multivariate integration over hypercubes. This version provides both | |
4046 | @code{hcubature} and @code{pcubature} routines in addition to a vector | |
4047 | interface.") | |
4048 | ;; The included cubature C library is released under GPLv2+, but the | |
4049 | ;; wrapper declares the license to be GPLv3+. | |
4050 | (license (list license:gpl2+ license:gpl3+)))) | |
7531ee84 RW |
4051 | |
4052 | (define-public r-trend | |
4053 | (package | |
4054 | (name "r-trend") | |
cd4abb6d | 4055 | (version "1.1.1") |
7531ee84 RW |
4056 | (source |
4057 | (origin | |
4058 | (method url-fetch) | |
4059 | (uri (cran-uri "trend" version)) | |
4060 | (sha256 | |
4061 | (base32 | |
cd4abb6d | 4062 | "1bd567n15k2vpmgbx02584k5kglrc58mlb5kgd07wdss3knpa48q")))) |
7531ee84 RW |
4063 | (build-system r-build-system) |
4064 | (propagated-inputs | |
4065 | `(("r-extradistr" ,r-extradistr))) | |
4066 | (native-inputs | |
4067 | `(("gfortran" ,gfortran))) | |
d062957a | 4068 | (home-page "https://cran.r-project.org/web/packages/trend/") |
7531ee84 RW |
4069 | (synopsis "Non-parametric trend tests and change-point detection") |
4070 | (description | |
4071 | "The analysis of environmental data often requires the detection of | |
4072 | trends and change-points. This package includes tests for trend | |
4073 | detection (Cox-Stuart Trend Test, Mann-Kendall Trend Test, (correlated) | |
4074 | Hirsch-Slack Test, partial Mann-Kendall Trend Test, multivariate (multisite) | |
4075 | Mann-Kendall Trend Test, (Seasonal) Sen's slope, partial Pearson and Spearman | |
4076 | correlation trend test), change-point detection (Lanzante's test procedures, | |
4077 | Pettitt's test, Buishand Range Test, Buishand U Test, Standard Normal | |
4078 | Homogeinity Test), detection of non-randomness (Wallis-Moore Phase Frequency | |
4079 | Test, Bartels rank von Neumann's ratio test, Wald-Wolfowitz Test) and the two | |
4080 | sample Robust Rank-Order Distributional Test.") | |
4081 | (license license:gpl3))) | |
f96eda90 RW |
4082 | |
4083 | (define-public r-expm | |
4084 | (package | |
4085 | (name "r-expm") | |
44de41b5 | 4086 | (version "0.999-3") |
f96eda90 RW |
4087 | (source |
4088 | (origin | |
4089 | (method url-fetch) | |
4090 | (uri (cran-uri "expm" version)) | |
4091 | (sha256 | |
4092 | (base32 | |
44de41b5 | 4093 | "04k4a6g071jkjc0d30ncmf713dj16brcs9m6pj43hnycc1caq6si")))) |
f96eda90 RW |
4094 | (build-system r-build-system) |
4095 | (propagated-inputs `(("r-matrix" ,r-matrix))) | |
4096 | (native-inputs `(("gfortran" ,gfortran))) | |
d062957a | 4097 | (home-page "https://r-forge.r-project.org/projects/expm/") |
f96eda90 RW |
4098 | (synopsis "Tools for matrix exponentials and related quantities") |
4099 | (description | |
4100 | "This package provides tools for the computation of the matrix | |
4101 | exponential, logarithm, square root, and related quantities.") | |
4102 | (license license:gpl2+))) | |
68b6a67e RW |
4103 | |
4104 | (define-public r-complexplus | |
4105 | (package | |
4106 | (name "r-complexplus") | |
4107 | (version "2.1") | |
4108 | (source | |
4109 | (origin | |
4110 | (method url-fetch) | |
4111 | (uri (cran-uri "complexplus" version)) | |
4112 | (sha256 | |
4113 | (base32 | |
4114 | "16w9v7d1ckavqmr86l34frr37pkvdn0iqnb17ssb8xaggns5lgqx")))) | |
4115 | (build-system r-build-system) | |
4116 | (propagated-inputs | |
4117 | `(("r-expm" ,r-expm) | |
4118 | ("r-matrix" ,r-matrix))) | |
d062957a | 4119 | (home-page "https://cran.r-project.org/web/packages/complexplus/") |
68b6a67e RW |
4120 | (synopsis "Functions of complex or real variables") |
4121 | (description | |
4122 | "This package extends several functions to the complex domain, including | |
4123 | the matrix exponential and logarithm, and the determinant.") | |
4124 | (license license:gpl2))) | |
7b81a7ea RW |
4125 | |
4126 | (define-public r-phontools | |
4127 | (package | |
4128 | (name "r-phontools") | |
4129 | (version "0.2-2.1") | |
4130 | (source | |
4131 | (origin | |
4132 | (method url-fetch) | |
4133 | (uri (cran-uri "phonTools" version)) | |
4134 | (sha256 | |
4135 | (base32 | |
4136 | "01i481mhswsys3gpasw9gn6nxkfmi7bz46g5c84m13pg0cv8hxc7")))) | |
4137 | (properties `((upstream-name . "phonTools"))) | |
4138 | (build-system r-build-system) | |
4139 | (home-page "http://www.santiagobarreda.com/rscripts.html") | |
4140 | (synopsis "Tools for phonetic and acoustic analyses") | |
4141 | (description | |
4142 | "This package contains tools for the organization, display, and analysis | |
4143 | of the sorts of data frequently encountered in phonetics research and | |
4144 | experimentation, including the easy creation of IPA vowel plots, and the | |
4145 | creation and manipulation of WAVE audio files.") | |
4146 | (license license:bsd-2))) | |
d976454c RW |
4147 | |
4148 | (define-public r-np | |
4149 | (package | |
4150 | (name "r-np") | |
02c57c01 | 4151 | (version "0.60-9") |
d976454c RW |
4152 | (source |
4153 | (origin | |
4154 | (method url-fetch) | |
4155 | (uri (cran-uri "np" version)) | |
4156 | (sha256 | |
4157 | (base32 | |
02c57c01 | 4158 | "1z4jcpx8bbgwslv42wrphfd1qfq965qjn0kmfxm5f6hbbycahcgy")))) |
d976454c RW |
4159 | (build-system r-build-system) |
4160 | (propagated-inputs | |
4161 | `(("r-boot" ,r-boot) | |
4162 | ("r-cubature" ,r-cubature) | |
65d66b3e | 4163 | ("r-quadprog" ,r-quadprog) |
d976454c RW |
4164 | ("r-quantreg" ,r-quantreg))) |
4165 | (home-page "https://github.com/JeffreyRacine/R-Package-np") | |
4166 | (synopsis "Non-parametric kernel smoothing methods for mixed data types") | |
4167 | (description "This package provides non-parametric (and semi-parametric) | |
4168 | kernel methods that seamlessly handle a mix of continuous, unordered, and | |
4169 | ordered factor data types.") | |
4170 | ;; Any version of the GPL. | |
4171 | (license license:gpl3+))) | |
2a112be0 RW |
4172 | |
4173 | (define-public r-powerplus | |
4174 | (package | |
4175 | (name "r-powerplus") | |
4176 | (version "3.1") | |
4177 | (source | |
4178 | (origin | |
4179 | (method url-fetch) | |
4180 | (uri (cran-uri "powerplus" version)) | |
4181 | (sha256 | |
4182 | (base32 | |
4183 | "0ayp6x34hkzgris4j3zbbs0r23n81bhww3wgfyy630ri4sk6brrn")))) | |
4184 | (build-system r-build-system) | |
4185 | (propagated-inputs | |
4186 | `(("r-complexplus" ,r-complexplus) | |
4187 | ("r-expm" ,r-expm) | |
4188 | ("r-mass" ,r-mass) | |
4189 | ("r-matrix" ,r-matrix) | |
4190 | ("r-phontools" ,r-phontools))) | |
d062957a | 4191 | (home-page "https://cran.r-project.org/web/packages/powerplus/") |
2a112be0 RW |
4192 | (synopsis "Exponentiation operations") |
4193 | (description | |
4194 | "This package provides tools for the computation of matrix and scalar | |
4195 | exponentiation.") | |
4196 | (license license:gpl2))) | |
021caafa RW |
4197 | |
4198 | (define-public r-heatmaply | |
4199 | (package | |
4200 | (name "r-heatmaply") | |
19950821 | 4201 | (version "0.15.2") |
021caafa RW |
4202 | (source |
4203 | (origin | |
4204 | (method url-fetch) | |
4205 | (uri (cran-uri "heatmaply" version)) | |
4206 | (sha256 | |
4207 | (base32 | |
19950821 | 4208 | "0h8s5djzj4mrmaswlcaap6jbwxrkbzc43bbqik3qf8vrqz335w04")))) |
021caafa RW |
4209 | (build-system r-build-system) |
4210 | (propagated-inputs | |
4211 | `(("r-assertthat" ,r-assertthat) | |
4212 | ("r-colorspace" ,r-colorspace) | |
4213 | ("r-dendextend" ,r-dendextend) | |
4214 | ("r-ggplot2" ,r-ggplot2) | |
4215 | ("r-gplots" ,r-gplots) | |
4216 | ("r-htmlwidgets" ,r-htmlwidgets) | |
d0f34274 | 4217 | ("r-knitr" ,r-knitr) ; needed for vignettes |
021caafa RW |
4218 | ("r-magrittr" ,r-magrittr) |
4219 | ("r-plotly" ,r-plotly) | |
4220 | ("r-rcolorbrewer" ,r-rcolorbrewer) | |
4221 | ("r-reshape2" ,r-reshape2) | |
4222 | ("r-scales" ,r-scales) | |
4223 | ("r-seriation" ,r-seriation) | |
4224 | ("r-viridis" ,r-viridis) | |
4225 | ("r-webshot" ,r-webshot))) | |
4226 | (home-page "https://cran.r-project.org/package=heatmaply") | |
4227 | (synopsis "Interactive cluster heat maps using plotly") | |
4228 | (description | |
4229 | "This package enables you to create interactive cluster heatmaps that can | |
4230 | be saved as a stand-alone HTML file, embedded in R Markdown documents or in a | |
4231 | Shiny app, and made available in the RStudio viewer pane. Hover the mouse | |
4232 | pointer over a cell to show details or drag a rectangle to zoom. A heatmap is | |
4233 | a popular graphical method for visualizing high-dimensional data, in which a | |
4234 | table of numbers is encoded as a grid of colored cells. The rows and columns | |
4235 | of the matrix are ordered to highlight patterns and are often accompanied by | |
4236 | dendrograms.") | |
4237 | ;; Either version of the license. | |
4238 | (license (list license:gpl2 license:gpl3)))) | |
b2dc4cb4 | 4239 | |
ff939ef4 RW |
4240 | (define-public r-h5 |
4241 | (package | |
4242 | (name "r-h5") | |
4243 | (version "0.9.9") | |
4244 | (source | |
4245 | (origin | |
4246 | (method url-fetch) | |
4247 | (uri (cran-uri "h5" version)) | |
4248 | (sha256 | |
4249 | (base32 | |
4250 | "14p7i1sj24ky87kd7qr3n9fc9l64s0bp0rwbyl6i2x69xn75gpsx")))) | |
4251 | (build-system r-build-system) | |
4252 | (inputs | |
4253 | `(("zlib" ,zlib) | |
4254 | ("hdf5" ,hdf5))) | |
4255 | (native-inputs | |
4256 | `(("which" ,which))) | |
4257 | (propagated-inputs | |
4258 | `(("r-rcpp" ,r-rcpp))) | |
4259 | (home-page "https://github.com/mannau/h5") | |
4260 | (synopsis "Interface to the HDF5 Library") | |
4261 | (description | |
4262 | "This package provides an S4 interface to the HDF5 library supporting | |
4263 | fast storage and retrieval of R-objects like vectors, matrices and arrays to | |
4264 | binary files in a language independent format. The HDF5 format can therefore | |
4265 | be used as an alternative to R's save/load mechanism. Since h5 is able to | |
4266 | access only subsets of stored data it can also handle data sets which do not | |
4267 | fit into memory.") | |
4268 | (license license:bsd-2))) | |
4269 | ||
b2dc4cb4 RW |
4270 | (define-public r-cgdsr |
4271 | (package | |
4272 | (name "r-cgdsr") | |
4273 | (version "1.2.10") | |
4274 | (source | |
4275 | (origin | |
4276 | (method url-fetch) | |
4277 | (uri (cran-uri "cgdsr" version)) | |
4278 | (sha256 | |
4279 | (base32 | |
4280 | "1xyhw7mhmjichr1l6f9y1qvfj9wm87kfbm87ji7lcwf36gxh5g23")))) | |
4281 | (build-system r-build-system) | |
4282 | (propagated-inputs | |
4283 | `(("r-r-methodss3" ,r-r-methodss3) | |
4284 | ("r-r-oo" ,r-r-oo))) | |
4285 | (home-page "https://github.com/cBioPortal/cgdsr") | |
4286 | (synopsis "R-based API for accessing the MSKCC Cancer Genomics Data Server") | |
4287 | (description | |
4288 | "This package provides a basic set of R functions for querying the Cancer | |
4289 | Genomics Data Server (CGDS), hosted by the Computational Biology Center at | |
4290 | Memorial-Sloan-Kettering Cancer Center (MSKCC).") | |
4291 | (license license:lgpl3))) | |
a00968b7 RW |
4292 | |
4293 | (define-public r-import | |
4294 | (package | |
4295 | (name "r-import") | |
4296 | (version "1.1.0") | |
4297 | (source | |
4298 | (origin | |
4299 | (method url-fetch) | |
4300 | (uri (cran-uri "import" version)) | |
4301 | (sha256 | |
4302 | (base32 | |
4303 | "0blf9539rbfwcmw8zsb4k58slb4pdnc075v34vmyjw752fznhcji")))) | |
4304 | (build-system r-build-system) | |
4305 | (home-page "https://github.com/smbache/import") | |
4306 | (synopsis "Import mechanism for R") | |
4307 | (description | |
4308 | "This is an alternative mechanism for importing objects from packages. | |
4309 | The syntax allows for importing multiple objects from a package with a single | |
4310 | command in an expressive way. The import package bridges some of the gap | |
4311 | between using @code{library} (or @code{require}) and direct (single-object) | |
4312 | imports. Furthermore the imported objects are not placed in the current | |
4313 | environment. It is also possible to import objects from stand-alone @code{.R} | |
4314 | files.") | |
4315 | (license license:expat))) | |
5d9b82ac RW |
4316 | |
4317 | (define-public r-shinyace | |
4318 | (package | |
4319 | (name "r-shinyace") | |
f0fe1a5a | 4320 | (version "0.3.3") |
5d9b82ac RW |
4321 | (source |
4322 | (origin | |
4323 | (method url-fetch) | |
4324 | (uri (cran-uri "shinyAce" version)) | |
4325 | (sha256 | |
4326 | (base32 | |
f0fe1a5a | 4327 | "02q6wqw349nlyf3mbf18cxif1xv9cal5qzccrdlnv73szqn9jk7j")))) |
5d9b82ac RW |
4328 | (properties `((upstream-name . "shinyAce"))) |
4329 | (build-system r-build-system) | |
4330 | (propagated-inputs | |
e86d3cc5 RW |
4331 | `(("r-shiny" ,r-shiny) |
4332 | ("r-jsonlite" ,r-jsonlite))) | |
5d9b82ac RW |
4333 | (home-page "http://cran.r-project.org/web/packages/shinyAce") |
4334 | (synopsis "Ace editor bindings for Shiny") | |
4335 | (description | |
4336 | "This package provides Ace editor bindings to enable a rich text editing | |
4337 | environment within Shiny.") | |
4338 | (license license:expat))) | |
f64fea1d RW |
4339 | |
4340 | (define-public r-radiant-data | |
4341 | (package | |
4342 | (name "r-radiant-data") | |
e5f9e9fa | 4343 | (version "0.9.7") |
f64fea1d RW |
4344 | (source |
4345 | (origin | |
4346 | (method url-fetch) | |
4347 | (uri (cran-uri "radiant.data" version)) | |
4348 | (sha256 | |
4349 | (base32 | |
e5f9e9fa | 4350 | "1f98ahki0kyb27gl55a859zb0lsvk9gddd9f54y767xfs6h89cgk")) |
f64fea1d RW |
4351 | (modules '((guix build utils))) |
4352 | (snippet | |
4353 | '(begin | |
4354 | ;; Delete files that are under CC-NC-SA. | |
4355 | (delete-file-recursively "inst/app/tools/help") | |
4356 | #t)))) | |
4357 | (properties `((upstream-name . "radiant.data"))) | |
4358 | (build-system r-build-system) | |
4359 | (propagated-inputs | |
4360 | `(("r-base64enc" ,r-base64enc) | |
4361 | ("r-broom" ,r-broom) | |
4362 | ("r-car" ,r-car) | |
4363 | ("r-curl" ,r-curl) | |
4364 | ("r-dplyr" ,r-dplyr) | |
4365 | ("r-dt" ,r-dt) | |
36dc3591 | 4366 | ("r-glue" ,r-glue) |
f64fea1d RW |
4367 | ("r-ggplot2" ,r-ggplot2) |
4368 | ("r-gridextra" ,r-gridextra) | |
4369 | ("r-import" ,r-import) | |
4370 | ("r-jsonlite" ,r-jsonlite) | |
4371 | ("r-knitr" ,r-knitr) | |
4372 | ("r-lubridate" ,r-lubridate) | |
4373 | ("r-magrittr" ,r-magrittr) | |
4374 | ("r-markdown" ,r-markdown) | |
36dc3591 | 4375 | ("r-plotly" ,r-plotly) |
f64fea1d RW |
4376 | ("r-psych" ,r-psych) |
4377 | ("r-readr" ,r-readr) | |
36dc3591 RW |
4378 | ("r-readxl" ,r-readxl) |
4379 | ("r-rlang" ,r-rlang) | |
f64fea1d RW |
4380 | ("r-rmarkdown" ,r-rmarkdown) |
4381 | ("r-rstudioapi" ,r-rstudioapi) | |
4382 | ("r-scales" ,r-scales) | |
4383 | ("r-shiny" ,r-shiny) | |
e5f9e9fa | 4384 | ("r-shinyfiles" ,r-shinyfiles) |
f64fea1d | 4385 | ("r-shinyace" ,r-shinyace) |
e5f9e9fa | 4386 | ("r-summarytools" ,r-summarytools) |
f64fea1d | 4387 | ("r-tibble" ,r-tibble) |
36dc3591 RW |
4388 | ("r-tidyr" ,r-tidyr) |
4389 | ("r-writexl" ,r-writexl))) | |
f64fea1d RW |
4390 | (home-page "https://github.com/radiant-rstats/radiant.data") |
4391 | (synopsis "Data menu for Radiant: business analytics using R and Shiny") | |
4392 | (description | |
4393 | "The Radiant Data menu includes interfaces for loading, saving, viewing, | |
4394 | visualizing, summarizing, transforming, and combining data. It also contains | |
4395 | functionality to generate reproducible reports of the analyses conducted in | |
4396 | the application.") | |
4397 | (license license:agpl3))) | |
e2cafc24 RW |
4398 | |
4399 | (define-public r-algdesign | |
4400 | (package | |
4401 | (name "r-algdesign") | |
4402 | (version "1.1-7.3") | |
4403 | (source | |
4404 | (origin | |
4405 | (method url-fetch) | |
4406 | (uri (cran-uri "AlgDesign" version)) | |
4407 | (sha256 | |
4408 | (base32 | |
4409 | "0bl7mx4dnmkgs2x1fj7cqnrp7jx18mqwxyga0rzlniq12h8mc3fz")))) | |
4410 | (properties `((upstream-name . "AlgDesign"))) | |
4411 | (build-system r-build-system) | |
4412 | (home-page "https://github.com/jvbraun/AlgDesign") | |
4413 | (synopsis "Algorithmic experimental design") | |
4414 | (description | |
4415 | "This package provides tools to calculate exact and approximate theory | |
4416 | experimental designs for D, A, and I criteria. Very large designs may be | |
4417 | created. Experimental designs may be blocked or blocked designs created from | |
4418 | a candidate list, using several criteria. The blocking can be done when whole | |
4419 | and within plot factors interact.") | |
4420 | (license license:gpl2+))) | |
35b0c051 RW |
4421 | |
4422 | (define-public r-signal | |
4423 | (package | |
4424 | (name "r-signal") | |
4425 | (version "0.7-6") | |
4426 | (source | |
4427 | (origin | |
4428 | (method url-fetch) | |
4429 | (uri (cran-uri "signal" version)) | |
4430 | (sha256 | |
4431 | (base32 | |
4432 | "1vsxramz5qd9q9s3vlqzmfdpmwl2rhlb2n904zw6f0fg0xxjfq3b")))) | |
4433 | (build-system r-build-system) | |
4434 | (propagated-inputs `(("r-mass" ,r-mass))) | |
4435 | (native-inputs `(("gfortran" ,gfortran))) | |
d062957a | 4436 | (home-page "https://cran.r-project.org/web/packages/signal/") |
35b0c051 RW |
4437 | (synopsis "Signal processing") |
4438 | (description | |
4439 | "This package provides a set of signal processing functions originally | |
4440 | written for Matlab and GNU Octave. It includes filter generation utilities, | |
4441 | filtering functions, resampling routines, and visualization of filter models. | |
4442 | It also includes interpolation functions.") | |
4443 | (license license:gpl2))) | |
db80dd4a | 4444 | |
3dab50d9 RW |
4445 | (define-public r-gsubfn |
4446 | (package | |
4447 | (name "r-gsubfn") | |
2acc0e5f | 4448 | (version "0.7") |
3dab50d9 RW |
4449 | (source |
4450 | (origin | |
4451 | (method url-fetch) | |
4452 | (uri (cran-uri "gsubfn" version)) | |
4453 | (sha256 | |
4454 | (base32 | |
2acc0e5f | 4455 | "00j6b8b6xsx6v370h220x233rpk6asca78165y3d48jpwvwisdc9")))) |
3dab50d9 RW |
4456 | (build-system r-build-system) |
4457 | (propagated-inputs `(("r-proto" ,r-proto))) | |
4458 | (home-page "http://gsubfn.googlecode.com") | |
4459 | (synopsis "Utilities for strings and function arguments.") | |
4460 | (description | |
4461 | "This package provides @code{gsubfn} which is like @code{gsub} but can | |
4462 | take a replacement function or certain other objects instead of the | |
4463 | replacement string. Matches and back references are input to the replacement | |
4464 | function and replaced by the function output. @code{gsubfn} can be used to | |
4465 | split strings based on content rather than delimiters and for quasi-perl-style | |
4466 | string interpolation. The package also has facilities for translating | |
4467 | formulas to functions and allowing such formulas in function calls instead of | |
4468 | functions.") | |
4469 | (license license:gpl2+))) | |
3a563a41 RW |
4470 | |
4471 | (define-public r-sqldf | |
4472 | (package | |
4473 | (name "r-sqldf") | |
4474 | (version "0.4-11") | |
4475 | (source | |
4476 | (origin | |
4477 | (method url-fetch) | |
4478 | (uri (cran-uri "sqldf" version)) | |
4479 | (sha256 | |
4480 | (base32 | |
4481 | "0q12vsb53p2wchgp8wfz5bk08wfnm0jxjrakclj4jyy6x3a7ksff")))) | |
4482 | (build-system r-build-system) | |
4483 | (propagated-inputs | |
4484 | `(("r-chron" ,r-chron) | |
4485 | ("r-dbi" ,r-dbi) | |
4486 | ("r-gsubfn" ,r-gsubfn) | |
4487 | ("r-proto" ,r-proto) | |
4488 | ("r-rsqlite" ,r-rsqlite))) | |
4489 | (home-page "https://github.com/ggrothendieck/sqldf") | |
4490 | (synopsis "Manipulate R data frames using SQL") | |
4491 | (description | |
4492 | "The @code{sqldf} function is typically passed a single argument which is | |
4493 | an SQL select statement where the table names are ordinary R data frame names. | |
4494 | @code{sqldf} transparently sets up a database, imports the data frames into | |
4495 | that database, performs the SQL statement and returns the result using a | |
4496 | heuristic to determine which class to assign to each column of the returned | |
4497 | data frame. The @code{sqldf} or @code{read.csv.sql} functions can also be | |
4498 | used to read filtered files into R even if the original files are larger than | |
4499 | R itself can handle.") | |
4500 | (license license:gpl2))) | |
94e46cab RW |
4501 | |
4502 | (define-public r-abind | |
4503 | (package | |
4504 | (name "r-abind") | |
4505 | (version "1.4-5") | |
4506 | (source | |
4507 | (origin | |
4508 | (method url-fetch) | |
4509 | (uri (cran-uri "abind" version)) | |
4510 | (sha256 | |
4511 | (base32 | |
4512 | "0b1zd8jbnl6l292cr9rb50m09fy3ylxvzkpgi5lfb1nbzddcwfis")))) | |
4513 | (build-system r-build-system) | |
d062957a | 4514 | (home-page "https://cran.r-project.org/web/packages/abind/") |
94e46cab RW |
4515 | (synopsis "Combine multidimensional arrays") |
4516 | (description | |
4517 | "This package provides tools to combine multidimensional arrays into a | |
4518 | single array. This is a generalization of @code{cbind} and @code{rbind}. It | |
4519 | works with vectors, matrices, and higher-dimensional arrays. It also provides | |
4520 | the functions @code{adrop}, @code{asub}, and @code{afill} for manipulating, | |
4521 | extracting and replacing data in arrays.") | |
4522 | (license license:lgpl2.0+))) | |
fc784b66 RW |
4523 | |
4524 | (define-public r-prroc | |
4525 | (package | |
4526 | (name "r-prroc") | |
0430eb66 | 4527 | (version "1.3.1") |
fc784b66 RW |
4528 | (source |
4529 | (origin | |
4530 | (method url-fetch) | |
4531 | (uri (cran-uri "PRROC" version)) | |
4532 | (sha256 | |
4533 | (base32 | |
0430eb66 | 4534 | "1m28h8pcd78049lz2qixhkcr9h5b3jik3maqzfbvq9y58z71i4a7")))) |
fc784b66 RW |
4535 | (properties `((upstream-name . "PRROC"))) |
4536 | (build-system r-build-system) | |
d062957a | 4537 | (home-page "https://cran.r-project.org/web/packages/PRROC/") |
fc784b66 RW |
4538 | (synopsis "Precision-Recall and ROC curves for weighted and unweighted data") |
4539 | (description | |
4540 | "This package computes the areas under the @dfn{precision-recall} (PR) | |
4541 | and ROC curve for weighted (e.g. soft-labeled) and unweighted data. In | |
4542 | contrast to other implementations, the interpolation between points of the PR | |
4543 | curve is done by a non-linear piecewise function. In addition to the areas | |
4544 | under the curves, the curves themselves can also be computed and plotted by a | |
4545 | specific S3-method.") | |
4546 | (license license:gpl3))) | |
661bb51e RW |
4547 | |
4548 | (define-public r-vim | |
4549 | (package | |
4550 | (name "r-vim") | |
4551 | (version "4.7.0") | |
4552 | (source | |
4553 | (origin | |
4554 | (method url-fetch) | |
4555 | (uri (cran-uri "VIM" version)) | |
4556 | (sha256 | |
4557 | (base32 | |
4558 | "1vjcs5wvjv94ln01d94h9rs4j50d3ky4n26mm3prgh13raylrmnd")))) | |
4559 | (properties `((upstream-name . "VIM"))) | |
4560 | (build-system r-build-system) | |
4561 | (propagated-inputs | |
4562 | `(("r-car" ,r-car) | |
4563 | ("r-colorspace" ,r-colorspace) | |
4564 | ("r-data-table" ,r-data-table) | |
4565 | ("r-e1071" ,r-e1071) | |
4566 | ("r-laeken" ,r-laeken) | |
4567 | ("r-mass" ,r-mass) | |
4568 | ("r-nnet" ,r-nnet) | |
4569 | ("r-rcpp" ,r-rcpp) | |
4570 | ("r-robustbase" ,r-robustbase) | |
4571 | ("r-sp" ,r-sp) | |
4572 | ("r-vcd" ,r-vcd))) | |
4573 | (home-page "https://github.com/alexkowa/VIM") | |
4574 | (synopsis "Visualization and imputation of missing values") | |
4575 | (description | |
4576 | "This package provides tools for the visualization of missing and/or | |
4577 | imputed values are introduced, which can be used for exploring the data and | |
4578 | the structure of the missing and/or imputed values. Depending on this | |
4579 | structure of the missing values, the corresponding methods may help to | |
4580 | identify the mechanism generating the missing values and allows to explore the | |
4581 | data including missing values. In addition, the quality of imputation can be | |
4582 | visually explored using various univariate, bivariate, multiple and | |
4583 | multivariate plot methods.") | |
4584 | (license license:gpl2+))) | |
d10b0952 RW |
4585 | |
4586 | (define-public r-fnn | |
4587 | (package | |
4588 | (name "r-fnn") | |
f2fc34f2 | 4589 | (version "1.1.2.2") |
d10b0952 RW |
4590 | (source |
4591 | (origin | |
4592 | (method url-fetch) | |
4593 | (uri (cran-uri "FNN" version)) | |
4594 | (sha256 | |
4595 | (base32 | |
f2fc34f2 | 4596 | "09k3k0h9ikbwq6225l7gd0nhimbji722680cr66c8n7zpvxn06mm")))) |
d10b0952 RW |
4597 | (properties `((upstream-name . "FNN"))) |
4598 | (build-system r-build-system) | |
1b5905fe | 4599 | (home-page "https://cran.r-project.org/web/packages/FNN") |
d10b0952 RW |
4600 | (synopsis "Fast nearest neighbor search algorithms and applications") |
4601 | (description | |
4602 | "This package provides cover-tree and kd-tree fast k-nearest neighbor | |
4603 | search algorithms. Related applications including KNN classification, | |
4604 | regression and information measures are implemented.") | |
4605 | ;; The DESCRIPTION file erroneously states that GPL version 2.1 or | |
4606 | ;; later can be used. | |
4607 | (license license:gpl2+))) | |
be815dbd RW |
4608 | |
4609 | (define-public r-smoother | |
4610 | (package | |
4611 | (name "r-smoother") | |
4612 | (version "1.1") | |
4613 | (source | |
4614 | (origin | |
4615 | (method url-fetch) | |
4616 | (uri (cran-uri "smoother" version)) | |
4617 | (sha256 | |
4618 | (base32 | |
4619 | "0nqr1bvlr5bnasqg74zmknjjl4x28kla9h5cxpga3kq5z215pdci")))) | |
4620 | (build-system r-build-system) | |
4621 | (propagated-inputs | |
4622 | `(("r-ttr" ,r-ttr))) | |
4623 | (home-page "http://cran.r-project.org/web/packages/smoother") | |
4624 | (synopsis "Functions relating to the smoothing of numerical data") | |
4625 | (description | |
4626 | "This package provides a collection of methods for smoothing numerical | |
4627 | data, commencing with a port of the Matlab gaussian window smoothing function. | |
4628 | In addition, several functions typically used in smoothing of financial data | |
4629 | are included.") | |
4630 | (license license:gpl2))) | |
0efd09ac RW |
4631 | |
4632 | (define-public r-riverplot | |
4633 | (package | |
4634 | (name "r-riverplot") | |
4635 | (version "0.6") | |
4636 | (source | |
4637 | (origin | |
4638 | (method url-fetch) | |
4639 | (uri (cran-uri "riverplot" version)) | |
4640 | (sha256 | |
4641 | (base32 | |
4642 | "0q1icpny8nkxyjhawyjzwrw8qlz0ayn2xyrsqrm4vkxyv6c9xk8z")))) | |
4643 | (build-system r-build-system) | |
4644 | (home-page "https://logfc.wordpress.com") | |
4645 | (synopsis "Sankey or ribbon plots") | |
4646 | (description | |
4647 | "Sankey plots are a type of diagram that is convenient to illustrate how | |
4648 | flow of information, resources etc. separates and joins, much like observing | |
4649 | how rivers split and merge. For example, they can be used to compare | |
4650 | different clusterings. This package provides an implementation of Sankey | |
4651 | plots for R.") | |
4652 | (license license:gpl2+))) | |
c56739df SY |
4653 | |
4654 | (define-public r-dyn | |
4655 | (package | |
4656 | (name "r-dyn") | |
4657 | (version "0.2-9.6") | |
4658 | (source | |
4659 | (origin | |
4660 | (method url-fetch) | |
4661 | (uri (cran-uri "dyn" version)) | |
4662 | (sha256 | |
4663 | (base32 | |
4664 | "16fqv9k7yxdgybwzafjkyqm16qpgqz13lcjpi6a1nc8xbzlzh0gb")))) | |
4665 | (build-system r-build-system) | |
4666 | (propagated-inputs | |
4667 | `(("r-zoo" ,r-zoo))) | |
4668 | (home-page "https://cran.r-project.org/web/packages/dyn") | |
4669 | (synopsis "Time series regression") | |
4670 | (description | |
4671 | "This package provides the dyn class interfaces @code{ts}, @code{irts}, | |
4672 | @code{zoo} and @code{zooreg} time series classes to @code{lm}, @code{glm}, | |
4673 | @code{loess}, @code{quantreg::rq}, @code{MASS::rlm}, | |
4674 | @code{MCMCpack::MCMCregress()}, @code{quantreg::rq()}, | |
4675 | @code{randomForest::randomForest()} and other regression functions, allowing | |
4676 | those functions to be used with time series including specifications that may | |
4677 | contain lags, diffs and missing values.") | |
4678 | ;; Any GPL version. | |
4679 | (license license:gpl2+))) | |
24fa6bca SY |
4680 | |
4681 | (define-public r-catdap | |
4682 | (package | |
4683 | (name "r-catdap") | |
4684 | (version "1.3.4") | |
4685 | (source | |
4686 | (origin | |
4687 | (method url-fetch) | |
4688 | (uri (cran-uri "catdap" version)) | |
4689 | (sha256 | |
4690 | (base32 | |
4691 | "0i877l61f6c75pczi235rzci67w29zv1d7z5zn5p5ymndclvlpl2")))) | |
4692 | (build-system r-build-system) | |
4693 | (native-inputs | |
4694 | `(("gfortran" ,gfortran))) | |
4695 | (home-page "https://cran.r-project.org/web/packages/catdap/") | |
4696 | (synopsis "Tools for categorical data analysis") | |
4697 | (description | |
4698 | "This package provides functions for analyzing multivariate data. | |
4699 | Dependencies of the distribution of the specified variable (response | |
4700 | variable) to other variables (explanatory variables) are derived and | |
4701 | evaluated by the @dfn{Akaike Information Criterion} (AIC).") | |
4702 | (license license:gpl2+))) | |
96e22362 SS |
4703 | |
4704 | (define-public r-arules | |
4705 | (package | |
4706 | (name "r-arules") | |
962304c3 | 4707 | (version "1.6-2") |
96e22362 SS |
4708 | (source |
4709 | (origin | |
4710 | (method url-fetch) | |
4711 | (uri (cran-uri "arules" version)) | |
4712 | (sha256 | |
4713 | (base32 | |
962304c3 | 4714 | "0vnss6akk3564kbci3h5rq8ylpckz77cgmflly3gn6fki66f7g96")))) |
96e22362 SS |
4715 | (build-system r-build-system) |
4716 | (propagated-inputs | |
4717 | `(("r-matrix" ,r-matrix))) | |
4718 | (home-page "https://github.com/mhahsler/arules") | |
4719 | (synopsis "Mining association rules and frequent itemsets") | |
4720 | (description | |
4721 | "This package provides an infrastructure for representing, manipulating | |
4722 | and analyzing transaction data and patterns (frequent itemsets and association rules). | |
4723 | It also provides C implementations of the association mining algorithms Apriori | |
4724 | and Eclat.") | |
4725 | (license license:gpl3))) | |
1cde7467 KH |
4726 | |
4727 | (define-public r-parsedate | |
4728 | (package | |
4729 | (name "r-parsedate") | |
4730 | (version "1.1.3") | |
4731 | (source | |
4732 | (origin | |
4733 | (method url-fetch) | |
4734 | (uri (cran-uri "parsedate" version)) | |
4735 | (sha256 | |
4736 | (base32 | |
4737 | "0mg7hbm3903iwvmpn51gjpaaq03rsp72hjb1g8h5g84r81iha002")))) | |
4738 | (build-system r-build-system) | |
4739 | (home-page "https://github.com/gaborcsardi/parsedate") | |
4740 | (synopsis | |
4741 | "Recognize and parse dates in various formats") | |
4742 | (description | |
4743 | "This package provides three functions for dealing with dates: | |
4744 | @code{parse_iso_8601} recognizes and parses all valid ISO 8601 date and | |
4745 | time formats, @code{parse_date} parses dates in unspecified formats, | |
4746 | and @code{format_iso_8601} formats a date in ISO 8601 format.") | |
4747 | (license license:gpl2))) | |
2a27c0bb SY |
4748 | |
4749 | (define-public r-abc-data | |
4750 | (package | |
4751 | (name "r-abc-data") | |
4752 | (version "1.0") | |
4753 | (source | |
4754 | (origin | |
4755 | (method url-fetch) | |
4756 | (uri (cran-uri "abc.data" version)) | |
4757 | (sha256 | |
4758 | (base32 | |
4759 | "1bv1n68ah714ws58cf285n2s2v5vn7382lfjca4jxph57lyg8hmj")))) | |
4760 | (properties `((upstream-name . "abc.data"))) | |
4761 | (build-system r-build-system) | |
4762 | (home-page "https://cran.r-project.org/web/packages/abc.data/") | |
4763 | (synopsis "Data for Approximate Bayesian Computation (ABC) package") | |
4764 | (description | |
4765 | "This package contains data which are used by functions of the abc | |
4766 | package which implements several @dfn{Approximate Bayesian Computation} (ABC) | |
4767 | algorithms for performing parameter estimation, model selection, and | |
4768 | goodness-of-fit.") | |
4769 | (license license:gpl3+))) | |
82c8e0ae SY |
4770 | |
4771 | (define-public r-abc | |
4772 | (package | |
4773 | (name "r-abc") | |
4774 | (version "2.1") | |
4775 | (source | |
4776 | (origin | |
4777 | (method url-fetch) | |
4778 | (uri (cran-uri "abc" version)) | |
4779 | (sha256 | |
4780 | (base32 | |
4781 | "0ngzaaz2y2s03fhngvwipmy4kq38xrmyddaz6a6l858rxvadrlhb")))) | |
4782 | (build-system r-build-system) | |
4783 | (propagated-inputs | |
4784 | `(("r-abc-data" ,r-abc-data) | |
4785 | ("r-locfit" ,r-locfit) | |
4786 | ("r-mass" ,r-mass) | |
4787 | ("r-nnet" ,r-nnet) | |
4788 | ("r-quantreg" ,r-quantreg))) | |
4789 | (home-page "https://cran.r-project.org/web/packages/abc/") | |
4790 | (synopsis "Tools for Approximate Bayesian Computation (ABC)") | |
4791 | (description | |
4792 | "This package implements several @dfn{Approximate Bayesian | |
4793 | Computation} (ABC) algorithms for performing parameter estimation, model | |
4794 | selection, and goodness-of-fit. Cross-validation tools are also available for | |
4795 | measuring the accuracy of ABC estimates, and to calculate the | |
4796 | misclassification probabilities of different models.") | |
4797 | (license license:gpl3+))) | |
4b1f7a3e | 4798 | |
d182828f RW |
4799 | (define-public r-zip |
4800 | (package | |
4801 | (name "r-zip") | |
4802 | (version "1.0.0") | |
4803 | (source | |
4804 | (origin | |
4805 | (method url-fetch) | |
4806 | (uri (cran-uri "zip" version)) | |
4807 | (sha256 | |
4808 | (base32 | |
4809 | "0rgr9pcdhdq3k8n29h2ircp3ri1ibhrx81gja1y7331v15xyrabg")))) | |
4810 | (build-system r-build-system) | |
4811 | (home-page "https://github.com/gaborcsardi/zip") | |
4812 | (synopsis "Cross-platform Zip compression") | |
4813 | (description | |
4814 | "This package provides a cross-platform Zip compression library for R. | |
4815 | It is a replacement for the @code{zip} function, that does not require any | |
4816 | additional external tools on any platform.") | |
4817 | (license license:cc0))) | |
4818 | ||
4b1f7a3e RW |
4819 | (define-public r-openxlsx |
4820 | (package | |
4821 | (name "r-openxlsx") | |
a8b4677b | 4822 | (version "4.1.0") |
4b1f7a3e RW |
4823 | (source |
4824 | (origin | |
4825 | (method url-fetch) | |
4826 | (uri (cran-uri "openxlsx" version)) | |
4827 | (sha256 | |
4828 | (base32 | |
a8b4677b | 4829 | "1n7z22pm78xa77fvn77kdn68az6xzxk36y11sqf0w6h6adri4yxb")))) |
4b1f7a3e | 4830 | (build-system r-build-system) |
a8b4677b RW |
4831 | (propagated-inputs |
4832 | `(("r-rcpp" ,r-rcpp) | |
4833 | ("r-zip" ,r-zip))) | |
4b1f7a3e RW |
4834 | (home-page "https://github.com/awalker89/openxlsx") |
4835 | (synopsis "Read, write and edit XLSX files") | |
4836 | (description | |
4837 | "This package simplifies the creation of Excel @code{.xlsx} files by | |
4838 | providing a high level interface to writing, styling and editing worksheets. | |
4839 | Through the use of Rcpp, read/write times are comparable to the @code{xlsx} | |
4840 | and @code{XLConnect} packages with the added benefit of removing the | |
4841 | dependency on Java.") | |
4842 | (license license:gpl3))) | |
c9920f25 RW |
4843 | |
4844 | (define-public r-rio | |
4845 | (package | |
4846 | (name "r-rio") | |
1417d5f1 | 4847 | (version "0.5.16") |
c9920f25 RW |
4848 | (source |
4849 | (origin | |
4850 | (method url-fetch) | |
4851 | (uri (cran-uri "rio" version)) | |
4852 | (sha256 | |
4853 | (base32 | |
1417d5f1 | 4854 | "0rfl56fdawlhc98451a9lcb6a6m56kw0i7dvd5hx58z025d8vsyk")))) |
c9920f25 RW |
4855 | (build-system r-build-system) |
4856 | (propagated-inputs | |
4857 | `(("r-curl" ,r-curl) | |
4858 | ("r-data-table" ,r-data-table) | |
4859 | ("r-foreign" ,r-foreign) | |
4860 | ("r-haven" ,r-haven) | |
4861 | ("r-openxlsx" ,r-openxlsx) | |
4862 | ("r-readxl" ,r-readxl) | |
4863 | ("r-tibble" ,r-tibble))) | |
4864 | (home-page "https://github.com/leeper/rio") | |
4865 | (synopsis "Swiss-army knife for data I/O") | |
4866 | (description | |
4867 | "This package provides streamlined data import and export infrastructure | |
4868 | by making assumptions that the user is probably willing to make: @code{import} | |
4869 | and @code{export} determine the data structure from the file extension, | |
4870 | reasonable defaults are used for data import and export (e.g., | |
4871 | @code{stringsAsFactors=FALSE}), web-based import is natively | |
4872 | supported (including from SSL/HTTPS), compressed files can be read directly | |
4873 | without explicit decompression, and fast import packages are used where | |
4874 | appropriate. An additional convenience function, @code{convert}, provides a | |
4875 | simple method for converting between file types.") | |
4876 | (license license:gpl2))) | |
08dac3d9 RW |
4877 | |
4878 | (define-public r-maptools | |
4879 | (package | |
4880 | (name "r-maptools") | |
80234d32 | 4881 | (version "0.9-4") |
08dac3d9 RW |
4882 | (source |
4883 | (origin | |
4884 | (method url-fetch) | |
4885 | (uri (cran-uri "maptools" version)) | |
4886 | (sha256 | |
4887 | (base32 | |
80234d32 | 4888 | "1753kgyc4kmbb5h6knz5wgvvvj8v77kzm8lz0kwz05m5k3spa24k")))) |
08dac3d9 RW |
4889 | (build-system r-build-system) |
4890 | (propagated-inputs | |
4891 | `(("r-foreign" ,r-foreign) | |
4892 | ("r-lattice" ,r-lattice) | |
4893 | ("r-sp" ,r-sp))) | |
4894 | (home-page "http://r-forge.r-project.org/projects/maptools/") | |
4895 | (synopsis "Tools for reading and handling spatial objects") | |
4896 | (description | |
4897 | "This package provides a set of tools for manipulating and reading | |
4898 | geographic data, in particular ESRI Shapefiles. It includes binary access to | |
4899 | GSHHG shoreline files. The package also provides interface wrappers for | |
4900 | exchanging spatial objects with other R packages.") | |
4901 | ;; The C source files from shapelib are released under the Expat license. | |
4902 | ;; The R code is released under GPL version 2 or later. | |
4903 | (license (list license:gpl2+ | |
4904 | license:expat)))) | |
284179bb RW |
4905 | |
4906 | (define-public r-later | |
4907 | (package | |
4908 | (name "r-later") | |
7608984f | 4909 | (version "0.7.5") |
284179bb RW |
4910 | (source |
4911 | (origin | |
4912 | (method url-fetch) | |
4913 | (uri (cran-uri "later" version)) | |
4914 | (sha256 | |
4915 | (base32 | |
7608984f | 4916 | "0xhwn37makzm85zb6w5acc7svzibxcnz69rks0kxw22vapkxwz1i")))) |
284179bb RW |
4917 | (build-system r-build-system) |
4918 | (propagated-inputs | |
4919 | `(("r-bh" ,r-bh) | |
4920 | ("r-rcpp" ,r-rcpp) | |
4921 | ("r-rlang" ,r-rlang))) | |
4922 | (home-page "https://github.com/r-lib/later") | |
4923 | (synopsis "Utilities for delaying function execution") | |
4924 | (description | |
4925 | "This package provides tools to execute arbitrary R or C functions some | |
4926 | time after the current time, after the R execution stack has emptied.") | |
4927 | (license license:gpl2+))) | |
d9d66ba9 RW |
4928 | |
4929 | (define-public r-promises | |
4930 | (package | |
4931 | (name "r-promises") | |
4932 | (version "1.0.1") | |
4933 | (source | |
4934 | (origin | |
4935 | (method url-fetch) | |
4936 | (uri (cran-uri "promises" version)) | |
4937 | (sha256 | |
4938 | (base32 | |
4939 | "0n2mlv6bvfb4yhgcml696l9vkbw21pz0smqylivr606z99rwgny2")))) | |
4940 | (build-system r-build-system) | |
4941 | (propagated-inputs | |
4942 | `(("r-later" ,r-later) | |
4943 | ("r-magrittr" ,r-magrittr) | |
4944 | ("r-r6" ,r-r6) | |
4945 | ("r-rcpp" ,r-rcpp) | |
4946 | ("r-rlang" ,r-rlang))) | |
4947 | (home-page "https://rstudio.github.io/promises") | |
4948 | (synopsis "Abstractions for promise-based asynchronous programming") | |
4949 | (description | |
4950 | "This package provides fundamental abstractions for doing asynchronous | |
4951 | programming in R using promises. Asynchronous programming is useful for | |
4952 | allowing a single R process to orchestrate multiple tasks in the background | |
4953 | while also attending to something else. Semantics are similar to JavaScript | |
4954 | promises, but with a syntax that is idiomatic R.") | |
4955 | (license license:expat))) | |
3cf9ae2f RW |
4956 | |
4957 | (define-public r-dosnow | |
4958 | (package | |
4959 | (name "r-dosnow") | |
4960 | (version "1.0.16") | |
4961 | (source | |
4962 | (origin | |
4963 | (method url-fetch) | |
4964 | (uri (cran-uri "doSNOW" version)) | |
4965 | (sha256 | |
4966 | (base32 | |
4967 | "13ir4a8252h4yvp5ir9xnwack1kn58i4ny6sf2qdc12zspn3850n")))) | |
4968 | (properties `((upstream-name . "doSNOW"))) | |
4969 | (build-system r-build-system) | |
4970 | (propagated-inputs | |
4971 | `(("r-foreach" ,r-foreach) | |
4972 | ("r-iterators" ,r-iterators) | |
4973 | ("r-snow" ,r-snow))) | |
4974 | (home-page "https://cran.r-project.org/web/packages/doSNOW") | |
4975 | (synopsis "Foreach parallel adaptor for the snow package") | |
4976 | (description | |
4977 | "This package provides a parallel backend for the @code{%dopar%} function | |
4978 | using the @code{snow} package.") | |
4979 | (license license:gpl2))) | |
fdc3a05d RJ |
4980 | |
4981 | (define-public r-snowfall | |
4982 | (package | |
4983 | (name "r-snowfall") | |
4984 | (version "1.84-6.1") | |
4985 | (source (origin | |
4986 | (method url-fetch) | |
4987 | (uri (cran-uri "snowfall" version)) | |
4988 | (sha256 | |
4989 | (base32 "13941rlw1jsdjsndp1plzj1cq5aqravizkrqn6l25r9im7rnsi2w")))) | |
4990 | (build-system r-build-system) | |
4991 | (propagated-inputs | |
4992 | `(("r-snow" ,r-snow))) | |
4993 | (home-page "http://cran.r-project.org/web/packages/snowfall/") | |
4994 | (synopsis "Easier cluster computing") | |
4995 | (description "This package is a usability wrapper around snow for easier | |
4996 | development of parallel R programs. This package offers e.g. extended error | |
4997 | checks, and additional functions. All functions work in sequential mode, too, | |
4998 | if no cluster is present or wished. The package is also designed as connector | |
4999 | to the cluster management tool @code{sfCluster}, but can also used without | |
5000 | it.") | |
5001 | (license license:gpl2+))) | |
e09d74ec | 5002 | |
94a8990f RW |
5003 | (define-public r-rappdirs |
5004 | (package | |
5005 | (name "r-rappdirs") | |
5006 | (version "0.3.1") | |
5007 | (source | |
5008 | (origin | |
5009 | (method url-fetch) | |
5010 | (uri (cran-uri "rappdirs" version)) | |
5011 | (sha256 | |
5012 | (base32 | |
5013 | "0ji6sg3bdn5gazkq14xmmcq7jnbsyxw4lzmmbgv6526j2vn93n1g")))) | |
5014 | (build-system r-build-system) | |
5015 | (home-page "https://cran.r-project.org/web/packages/rappdirs/") | |
5016 | (synopsis "Determine where to save data, caches, and logs") | |
5017 | (description | |
5018 | "This package provides an easy way to determine which directories on the | |
5019 | user's computer should be used to save data, caches and logs. It is a port of | |
5020 | Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.") | |
5021 | (license license:expat))) | |
2b47ebe1 RW |
5022 | |
5023 | (define-public r-learnr | |
5024 | (package | |
5025 | (name "r-learnr") | |
7d0370ed | 5026 | (version "0.9.2.1") |
2b47ebe1 RW |
5027 | (source |
5028 | (origin | |
5029 | (method url-fetch) | |
5030 | (uri (cran-uri "learnr" version)) | |
5031 | (sha256 | |
5032 | (base32 | |
7d0370ed | 5033 | "0jbk0g6fkw7zs8ykzhsvh9vvz8xmc4v03bqzjsa5mmpxpqan5vx5")))) |
2b47ebe1 RW |
5034 | (build-system r-build-system) |
5035 | (propagated-inputs | |
5036 | `(("r-evaluate" ,r-evaluate) | |
5037 | ("r-htmltools" ,r-htmltools) | |
5038 | ("r-htmlwidgets" ,r-htmlwidgets) | |
5039 | ("r-jsonlite" ,r-jsonlite) | |
5040 | ("r-knitr" ,r-knitr) | |
5041 | ("r-markdown" ,r-markdown) | |
5042 | ("r-rappdirs" ,r-rappdirs) | |
5043 | ("r-rmarkdown" ,r-rmarkdown) | |
5044 | ("r-rprojroot" ,r-rprojroot) | |
5045 | ("r-shiny" ,r-shiny) | |
5046 | ("r-withr" ,r-withr))) | |
5047 | (home-page "https://rstudio.github.io/learnr/") | |
5048 | (synopsis "Interactive tutorials for R") | |
5049 | (description | |
5050 | "This package provides tools to create interactive tutorials using R | |
5051 | Markdown. Use a combination of narrative, figures, videos, exercises, and | |
5052 | quizzes to create self-paced tutorials for learning about R and R packages.") | |
5053 | (license license:asl2.0))) | |
12591673 RW |
5054 | |
5055 | (define-public r-analytics | |
5056 | (package | |
5057 | (name "r-analytics") | |
7a06cdfa | 5058 | (version "3.0") |
12591673 RW |
5059 | (source |
5060 | (origin | |
5061 | (method url-fetch) | |
5062 | (uri (cran-uri "analytics" version)) | |
5063 | (sha256 | |
5064 | (base32 | |
7a06cdfa | 5065 | "0js3c8lwj3knccb55nq03cbjlf4w390p9aid2mi5x80l3ayd9in1")))) |
12591673 RW |
5066 | (build-system r-build-system) |
5067 | (propagated-inputs | |
5068 | `(("r-car" ,r-car) | |
5069 | ("r-cluster" ,r-cluster) | |
5070 | ("r-fractal" ,r-fractal) | |
5071 | ("r-lmtest" ,r-lmtest) | |
5072 | ("r-mass" ,r-mass) | |
5073 | ("r-np" ,r-np) | |
5074 | ("r-powerplus" ,r-powerplus) | |
5075 | ("r-robust" ,r-robust) | |
5076 | ("r-trend" ,r-trend) | |
5077 | ("r-tsa" ,r-tsa) | |
7a06cdfa RW |
5078 | ("r-urca" ,r-urca) |
5079 | ("r-vim" ,r-vim))) | |
12591673 RW |
5080 | (home-page "https://cran.r-project.org/web/packages/analytics/") |
5081 | (synopsis "Collection of data analysis tools") | |
5082 | (description | |
5083 | "This package is a collection of data analysis tools. It includes tools | |
5084 | for regression outlier detection in a fitted linear model, stationary | |
5085 | bootstrap using a truncated geometric distribution, a comprehensive test for | |
5086 | weak stationarity, column means by group, weighted biplots, and a heuristic to | |
5087 | obtain a better initial configuration in non-metric MDS.") | |
5088 | (license license:gpl2))) | |
9f56ceec RW |
5089 | |
5090 | (define-public r-reticulate | |
5091 | (package | |
5092 | (name "r-reticulate") | |
2cdd9d4f | 5093 | (version "1.10") |
9f56ceec RW |
5094 | (source |
5095 | (origin | |
5096 | (method url-fetch) | |
5097 | (uri (cran-uri "reticulate" version)) | |
5098 | (sha256 | |
5099 | (base32 | |
2cdd9d4f | 5100 | "0bz3lxbisjwn6cv23090zivpy0bxcncr82g5qja13l37i8xnvqsq")))) |
9f56ceec RW |
5101 | (build-system r-build-system) |
5102 | (inputs `(("python" ,python))) | |
5103 | (propagated-inputs | |
5104 | `(("r-jsonlite" ,r-jsonlite) | |
5105 | ("r-matrix" ,r-matrix) | |
5106 | ("r-rcpp" ,r-rcpp))) | |
5107 | (home-page "https://github.com/rstudio/reticulate") | |
5108 | (synopsis "R interface to Python") | |
5109 | (description | |
5110 | "This package provides an interface from R to Python modules, classes, | |
5111 | and functions. When calling into Python, R data types are automatically | |
5112 | converted to their equivalent Python types. When values are returned from | |
5113 | Python to R they are converted back to R types.") | |
5114 | (license license:asl2.0))) | |
11de8673 RW |
5115 | |
5116 | (define-public r-bibtex | |
5117 | (package | |
5118 | (name "r-bibtex") | |
5119 | (version "0.4.2") | |
5120 | (source | |
5121 | (origin | |
5122 | (method url-fetch) | |
5123 | (uri (cran-uri "bibtex" version)) | |
5124 | (sha256 | |
5125 | (base32 | |
5126 | "0wl3925ryd54g1nv3ncwllc493d39dpgy5md61940h69c0van1hz")))) | |
5127 | (build-system r-build-system) | |
5128 | (propagated-inputs `(("r-stringr" ,r-stringr))) | |
5129 | (home-page "https://github.com/romainfrancois/bibtex") | |
5130 | (synopsis "Bibtex parser") | |
5131 | (description "This package provides a utility for R to parse a bibtex | |
5132 | file.") | |
5133 | (license license:gpl2+))) | |
e67acae7 RW |
5134 | |
5135 | (define-public r-ggseqlogo | |
5136 | (package | |
5137 | (name "r-ggseqlogo") | |
5138 | (version "0.1") | |
5139 | (source | |
5140 | (origin | |
5141 | (method url-fetch) | |
5142 | (uri (cran-uri "ggseqlogo" version)) | |
5143 | (sha256 | |
5144 | (base32 | |
5145 | "13q6kcpxrqxqbji889fx63p0nsi08lk5yymkchig75r5k1d18ky1")))) | |
5146 | (build-system r-build-system) | |
5147 | (propagated-inputs `(("r-ggplot2" ,r-ggplot2))) | |
5148 | (home-page "https://github.com/omarwagih/ggseqlogo") | |
5149 | (synopsis "ggplot2 extension for drawing genetic sequence logos") | |
5150 | (description | |
5151 | "The range of functions provided by this package makes it possible to | |
5152 | draw highly versatile genomic sequence logos. Features include, but are not | |
5153 | limited to, modifying colour schemes and fonts used to draw the logo, | |
5154 | generating multiple logo plots, and aiding the visualisation with annotations. | |
5155 | Sequence logos can easily be combined with other ggplot2 plots.") | |
5156 | ;; Unspecified version of the LGPL. | |
5157 | (license license:lgpl3+))) | |
85df1a86 RW |
5158 | |
5159 | (define-public r-ggsci | |
5160 | (package | |
5161 | (name "r-ggsci") | |
5162 | (version "2.9") | |
5163 | (source | |
5164 | (origin | |
5165 | (method url-fetch) | |
5166 | (uri (cran-uri "ggsci" version)) | |
5167 | (sha256 | |
5168 | (base32 | |
5169 | "0g73x6grbka7ahjh6z23m3wrcifp5rdfdiasbl8lq4sp6rplxwaa")))) | |
5170 | (build-system r-build-system) | |
5171 | (propagated-inputs | |
5172 | `(("r-ggplot2" ,r-ggplot2) | |
5173 | ("r-scales" ,r-scales))) | |
5174 | (home-page "https://nanx.me/ggsci/") | |
5175 | (synopsis "Scientific journal and sci-fi themed color palettes for ggplot2") | |
5176 | (description | |
5177 | "This package provides a collection of ggplot2 color palettes inspired by | |
5178 | plots in scientific journals, data visualization libraries, science fiction | |
5179 | movies, and TV shows.") | |
5180 | (license license:gpl3))) | |
5219c5c5 RW |
5181 | |
5182 | (define-public r-ggsignif | |
5183 | (package | |
5184 | (name "r-ggsignif") | |
5185 | (version "0.4.0") | |
5186 | (source | |
5187 | (origin | |
5188 | (method url-fetch) | |
5189 | (uri (cran-uri "ggsignif" version)) | |
5190 | (sha256 | |
5191 | (base32 | |
5192 | "1rn58d7pb3axk6chiihryykrzw76adaa2yiafq4d0j6qbhax78f7")))) | |
5193 | (build-system r-build-system) | |
5194 | (propagated-inputs | |
5195 | `(("r-ggplot2" ,r-ggplot2))) | |
5196 | (home-page "https://github.com/const-ae/ggsignif") | |
5197 | (synopsis "Significance brackets for ggplot2") | |
5198 | (description | |
5199 | "Enrich your ggplots with group-wise comparisons. This package provides | |
5200 | an easy way to indicate if two groups are significantly different. Commonly | |
5201 | this is shown by a bracket on top connecting the groups of interest which | |
5202 | itself is annotated with the level of significance. The package provides a | |
5203 | single layer that takes the groups for comparison and the test as arguments | |
5204 | and adds the annotation to the plot.") | |
5205 | (license license:gpl3))) | |
5cbaaee8 RW |
5206 | |
5207 | (define-public r-ggpubr | |
5208 | (package | |
5209 | (name "r-ggpubr") | |
1659c5dd | 5210 | (version "0.2") |
5cbaaee8 RW |
5211 | (source |
5212 | (origin | |
5213 | (method url-fetch) | |
5214 | (uri (cran-uri "ggpubr" version)) | |
5215 | (sha256 | |
5216 | (base32 | |
1659c5dd | 5217 | "0rkpcjb1x7lvhj68aam5airbi534jqyiq12x5xk40a25iifhghq6")))) |
5cbaaee8 RW |
5218 | (build-system r-build-system) |
5219 | (propagated-inputs | |
5220 | `(("r-cowplot" ,r-cowplot) | |
5221 | ("r-dplyr" ,r-dplyr) | |
5222 | ("r-ggplot2" ,r-ggplot2) | |
5223 | ("r-ggrepel" ,r-ggrepel) | |
5224 | ("r-ggsci" ,r-ggsci) | |
5225 | ("r-ggsignif" ,r-ggsignif) | |
caaec886 | 5226 | ("r-glue" ,r-glue) |
5cbaaee8 RW |
5227 | ("r-gridextra" ,r-gridextra) |
5228 | ("r-magrittr" ,r-magrittr) | |
caaec886 | 5229 | ("r-polynom" ,r-polynom) |
5cbaaee8 RW |
5230 | ("r-purrr" ,r-purrr) |
5231 | ("r-scales" ,r-scales) | |
5232 | ("r-tidyr" ,r-tidyr))) | |
5233 | (home-page "http://www.sthda.com/english/rpkgs/ggpubr") | |
5234 | (synopsis "ggplot2-based publication-ready plots") | |
5235 | (description | |
5236 | "The ggplot2 package is an excellent and flexible package for elegant | |
5237 | data visualization in R. However the default generated plots require some | |
5238 | formatting before we can send them for publication. The ggpubr package | |
5239 | provides some easy-to-use functions for creating and customizing ggplot2-based | |
5240 | publication-ready plots.") | |
5241 | (license license:gpl2))) | |
141e43bd RW |
5242 | |
5243 | (define-public r-ellipse | |
5244 | (package | |
5245 | (name "r-ellipse") | |
5246 | (version "0.4.1") | |
5247 | (source | |
5248 | (origin | |
5249 | (method url-fetch) | |
5250 | (uri (cran-uri "ellipse" version)) | |
5251 | (sha256 | |
5252 | (base32 | |
5253 | "0g82vc51m3c1k0hnpp2zla6amxxgk2mmkl8ssnsc49jv3599r6hs")))) | |
5254 | (build-system r-build-system) | |
5255 | (home-page "https://cran.r-project.org/web/packages/ellipse/") | |
5256 | (synopsis "Functions for drawing ellipses and ellipse-like confidence regions") | |
5257 | (description | |
5258 | "This package contains various routines for drawing ellipses and | |
5259 | ellipse-like confidence regions, implementing the plots described in Murdoch | |
5260 | and Chow (1996), A graphical display of large correlation matrices, The | |
5261 | American Statistician 50, 178-180. There are also routines implementing the | |
5262 | profile plots described in Bates and Watts (1988), Nonlinear Regression | |
5263 | Analysis and its Applications.") | |
5264 | (license license:gpl2+))) | |
cbf6017d RW |
5265 | |
5266 | (define-public r-flashclust | |
5267 | (package | |
5268 | (name "r-flashclust") | |
5269 | (version "1.01-2") | |
5270 | (source | |
5271 | (origin | |
5272 | (method url-fetch) | |
5273 | (uri (cran-uri "flashClust" version)) | |
5274 | (sha256 | |
5275 | (base32 | |
5276 | "0l4lpz451ll7f7lfxmb7ds24ppzhfg1c3ypvydglcc35p2dq99s8")))) | |
5277 | (properties `((upstream-name . "flashClust"))) | |
5278 | (build-system r-build-system) | |
5279 | (native-inputs `(("gfortran" ,gfortran))) | |
5280 | (home-page "https://cran.r-project.org/web/packages/flashClust/") | |
5281 | (synopsis "Implementation of optimal hierarchical clustering") | |
5282 | (description | |
5283 | "This package provides a fast implementation of hierarchical | |
5284 | clustering.") | |
5285 | (license license:gpl2+))) | |
e83841a2 RW |
5286 | |
5287 | (define-public r-factominer | |
5288 | (package | |
5289 | (name "r-factominer") | |
5290 | (version "1.41") | |
5291 | (source | |
5292 | (origin | |
5293 | (method url-fetch) | |
5294 | (uri (cran-uri "FactoMineR" version)) | |
5295 | (sha256 | |
5296 | (base32 | |
5297 | "1h20hydav6l2b7bngqw1av4l5rrh0wk58nhailga1f4qw9lrv259")))) | |
5298 | (properties `((upstream-name . "FactoMineR"))) | |
5299 | (build-system r-build-system) | |
5300 | (propagated-inputs | |
5301 | `(("r-car" ,r-car) | |
5302 | ("r-cluster" ,r-cluster) | |
5303 | ("r-ellipse" ,r-ellipse) | |
5304 | ("r-flashclust" ,r-flashclust) | |
5305 | ("r-lattice" ,r-lattice) | |
5306 | ("r-leaps" ,r-leaps) | |
5307 | ("r-mass" ,r-mass) | |
5308 | ("r-scatterplot3d" ,r-scatterplot3d))) | |
5309 | (home-page "http://factominer.free.fr") | |
5310 | (synopsis "Multivariate exploratory data analysis and data mining") | |
5311 | (description | |
5312 | "This package provides exploratory data analysis methods to summarize, | |
5313 | visualize and describe datasets. The main principal component methods are | |
5314 | available, those with the largest potential in terms of applications: | |
5315 | principal component analysis (PCA) when variables are quantitative, | |
5316 | correspondence analysis (CA) and multiple correspondence analysis (MCA) when | |
5317 | variables are categorical, Multiple Factor Analysis when variables are | |
5318 | structured in groups, etc. and hierarchical cluster analysis.") | |
5319 | (license license:gpl2+))) | |
f22bfee9 RW |
5320 | |
5321 | (define-public r-factoextra | |
5322 | (package | |
5323 | (name "r-factoextra") | |
5324 | (version "1.0.5") | |
5325 | (source | |
5326 | (origin | |
5327 | (method url-fetch) | |
5328 | (uri (cran-uri "factoextra" version)) | |
5329 | (sha256 | |
5330 | (base32 | |
5331 | "1l6m8k7qhdw8ndar8nhmym0lfyd1i2iszl1cicjax0vq23ss6xw1")))) | |
5332 | (build-system r-build-system) | |
5333 | (propagated-inputs | |
5334 | `(("r-abind" ,r-abind) | |
5335 | ("r-cluster" ,r-cluster) | |
5336 | ("r-dendextend" ,r-dendextend) | |
5337 | ("r-factominer" ,r-factominer) | |
5338 | ("r-ggplot2" ,r-ggplot2) | |
5339 | ("r-ggpubr" ,r-ggpubr) | |
5340 | ("r-ggrepel" ,r-ggrepel) | |
5341 | ("r-reshape2" ,r-reshape2) | |
5342 | ("r-tidyr" ,r-tidyr))) | |
5343 | (home-page "http://www.sthda.com/english/rpkgs/factoextra") | |
5344 | (synopsis "Extract and visualize the results of multivariate data analyses") | |
5345 | (description | |
5346 | "This package provides some easy-to-use functions to extract and | |
5347 | visualize the output of multivariate data analyses, including | |
6ccd88e8 RW |
5348 | @code{PCA} (Principal Component Analysis), @code{CA} (Correspondence |
5349 | Analysis), @code{MCA} (Multiple Correspondence Analysis), @code{FAMD} (Factor | |
5350 | Analysis of Mixed Data), @code{MFA} (Multiple Factor Analysis) and | |
f22bfee9 RW |
5351 | @code{HMFA} (Hierarchical Multiple Factor Analysis) functions from different R |
5352 | packages. It contains also functions for simplifying some clustering analysis | |
5353 | steps and provides ggplot2-based elegant data visualization.") | |
5354 | (license license:gpl2))) | |
0c9868aa | 5355 | |
356230da RW |
5356 | (define-public r-fansi |
5357 | (package | |
5358 | (name "r-fansi") | |
08645fcf | 5359 | (version "0.4.0") |
356230da RW |
5360 | (source |
5361 | (origin | |
5362 | (method url-fetch) | |
5363 | (uri (cran-uri "fansi" version)) | |
5364 | (sha256 | |
5365 | (base32 | |
08645fcf | 5366 | "02f2rx7v7wz6w97m2slwky2i5y8f9iafycmkyr3siy3z3k8fj171")))) |
356230da RW |
5367 | (build-system r-build-system) |
5368 | (native-inputs | |
5369 | `(("r-knitr" ,r-knitr))) ; for vignettes | |
5370 | (home-page "https://github.com/brodieG/fansi") | |
5371 | (synopsis "ANSI control sequence aware string functions") | |
5372 | (description | |
5373 | "This package provides counterparts to R string manipulation functions | |
5374 | that account for the effects of ANSI text formatting control sequences.") | |
5375 | (license license:gpl2+))) | |
5376 | ||
0c9868aa RW |
5377 | (define-public r-nbclust |
5378 | (package | |
5379 | (name "r-nbclust") | |
5380 | (version "3.0") | |
5381 | (source | |
5382 | (origin | |
5383 | (method url-fetch) | |
5384 | (uri (cran-uri "NbClust" version)) | |
5385 | (sha256 | |
5386 | (base32 | |
5387 | "1vwb48zy6ln1ddpqmfngii1i80n8qmqyxnzdp6gbaq96lakl3w3c")))) | |
5388 | (properties `((upstream-name . "NbClust"))) | |
5389 | (build-system r-build-system) | |
5390 | (home-page "https://sites.google.com/site/malikacharrad/research/nbclust-package") | |
5391 | (synopsis "Determine the best number of clusters in a data set") | |
5392 | (description | |
5393 | "NbClust provides 30 indexes for determining the optimal number of | |
5394 | clusters in a data set and offers the best clustering scheme from different | |
5395 | results to the user.") | |
5396 | (license license:gpl2))) | |
546fc4aa RW |
5397 | |
5398 | (define-public r-hdf5r | |
5399 | (package | |
5400 | (name "r-hdf5r") | |
081af9fa | 5401 | (version "1.0.1") |
546fc4aa RW |
5402 | (source |
5403 | (origin | |
5404 | (method url-fetch) | |
5405 | (uri (cran-uri "hdf5r" version)) | |
5406 | (sha256 | |
5407 | (base32 | |
081af9fa | 5408 | "0h222q80li8rs3cv4c5lvv3g91ygd51w43ay6fwyk9q9d315vwrj")))) |
546fc4aa RW |
5409 | (build-system r-build-system) |
5410 | (inputs | |
5411 | `(("hdf5" ,hdf5) | |
5412 | ("zlib" ,zlib))) | |
5413 | (propagated-inputs | |
5414 | `(("r-bit64" ,r-bit64) | |
5415 | ("r-r6" ,r-r6))) | |
5416 | (home-page "https://hhoeflin.github.io/hdf5r") | |
5417 | (synopsis "Interface to the HDF5 binary data format") | |
5418 | (description | |
5419 | "HDF5 is a data model, library and file format for storing and managing | |
5420 | large amounts of data. This package provides a nearly feature complete, | |
5421 | object oriented wrapper for the HDF5 API using R6 classes. Additionally, | |
5422 | functionality is added so that HDF5 objects behave very similar to their | |
5423 | corresponding R counterparts.") | |
5424 | (license license:asl2.0))) | |
846325a8 | 5425 | |
3568b823 RW |
5426 | (define-public r-itertools |
5427 | (package | |
5428 | (name "r-itertools") | |
5429 | (version "0.1-3") | |
5430 | (source | |
5431 | (origin | |
5432 | (method url-fetch) | |
5433 | (uri (cran-uri "itertools" version)) | |
5434 | (sha256 | |
5435 | (base32 | |
5436 | "1ls5biiva10pb1dj3ph4griykb9vam02hkrdmlr5a5wf660hg6xn")))) | |
5437 | (build-system r-build-system) | |
5438 | (propagated-inputs | |
5439 | `(("r-iterators" ,r-iterators))) | |
5440 | (home-page "https://cran.r-project.org/web/packages/itertools/") | |
5441 | (synopsis "Iterator tools") | |
5442 | (description | |
5443 | "This package provides various tools for creating iterators, many | |
5444 | patterned after functions in the Python @code{itertools} module, and others | |
5445 | patterned after functions in the snow package.") | |
5446 | (license license:gpl2))) | |
5447 | ||
53718658 RW |
5448 | (define-public r-polynom |
5449 | (package | |
5450 | (name "r-polynom") | |
5451 | (version "1.3-9") | |
5452 | (source | |
5453 | (origin | |
5454 | (method url-fetch) | |
5455 | (uri (cran-uri "polynom" version)) | |
5456 | (sha256 | |
5457 | (base32 | |
5458 | "1s4xxv5rvpigawknvq27v9vzvs83phfsj5h8mim2lmf5bj950nnk")))) | |
5459 | (build-system r-build-system) | |
5460 | (home-page "https://cran.r-project.org/web/packages/polynom/") | |
5461 | (synopsis "Functions for univariate polynomial manipulations") | |
5462 | (description | |
5463 | "This package provides a collection of functions to implement a class for | |
5464 | univariate polynomial manipulations.") | |
5465 | (license license:gpl2))) | |
5466 | ||
dd954dd7 RW |
5467 | (define-public r-gbrd |
5468 | (package | |
5469 | (name "r-gbrd") | |
5470 | (version "0.4-11") | |
5471 | (source | |
5472 | (origin | |
5473 | (method url-fetch) | |
5474 | (uri (cran-uri "gbRd" version)) | |
5475 | (sha256 | |
5476 | (base32 | |
5477 | "06x97rw5i6v6cgjxkfhxnw4dn7lghn5q6ra7ri5ag1x9dkfzcl82")))) | |
5478 | (properties `((upstream-name . "gbRd"))) | |
5479 | (build-system r-build-system) | |
5480 | (home-page "https://cran.r-project.org/web/packages/gbRd/") | |
5481 | (synopsis "Utilities for processing Rd objects and files") | |
5482 | (description | |
5483 | "This package provides utilities for processing Rd objects and files. | |
5484 | Extract argument descriptions and other parts of the help pages of | |
5485 | functions.") | |
5486 | (license license:gpl2+))) | |
5487 | ||
0c92f373 RW |
5488 | (define-public r-rjags |
5489 | (package | |
5490 | (name "r-rjags") | |
5491 | (version "4-8") | |
5492 | (source | |
5493 | (origin | |
5494 | (method url-fetch) | |
5495 | (uri (cran-uri "rjags" version)) | |
5496 | (sha256 | |
5497 | (base32 | |
5498 | "17xmjksj69f9wk4x71jxk4cgiqhaf2fj6bjm0mgzp4qln5x84a8m")))) | |
5499 | (build-system r-build-system) | |
5500 | (propagated-inputs | |
5501 | `(("r-coda" ,r-coda))) | |
5502 | (inputs | |
5503 | `(("jags" ,jags))) | |
5504 | (native-inputs | |
5505 | `(("pkg-config" ,pkg-config))) | |
5506 | (home-page "http://mcmc-jags.sourceforge.net") | |
5507 | (synopsis "Bayesian graphical models using MCMC") | |
5508 | (description | |
5509 | "This package provides an R interface to the JAGS MCMC library. JAGS is | |
5510 | Just Another Gibbs Sampler. It is a program for analysis of Bayesian | |
5511 | hierarchical models using Markov Chain Monte Carlo (MCMC) simulation.") | |
5512 | (license license:gpl2))) | |
5513 | ||
6a846975 RW |
5514 | (define-public r-rdpack |
5515 | (package | |
5516 | (name "r-rdpack") | |
71d99539 | 5517 | (version "0.10-1") |
6a846975 RW |
5518 | (source |
5519 | (origin | |
5520 | (method url-fetch) | |
5521 | (uri (cran-uri "Rdpack" version)) | |
5522 | (sha256 | |
5523 | (base32 | |
71d99539 | 5524 | "0bbjnw88h54v40hzim00i8yd3p4rk9i84zfdmgcbnylscwvsf0av")))) |
6a846975 RW |
5525 | (properties `((upstream-name . "Rdpack"))) |
5526 | (build-system r-build-system) | |
5527 | (propagated-inputs | |
5528 | `(("r-bibtex" ,r-bibtex) | |
5529 | ("r-gbrd" ,r-gbrd))) | |
5530 | (home-page "https://github.com/GeoBosh/Rdpack") | |
5531 | (synopsis "Update and manipulate Rd documentation objects") | |
5532 | (description | |
5533 | "This package provides functions for manipulation of R documentation | |
5534 | objects, including functions @code{reprompt()} and @code{ereprompt()} for | |
5535 | updating Rd documentation for functions, methods and classes; it also includes | |
5536 | Rd macros for citations and import of references from bibtex files for use in | |
5537 | Rd files and roxygen2 comments, as well as many functions for manipulation of | |
5538 | references and Rd files.") | |
5539 | (license license:gpl2+))) | |
5540 | ||
c183fa26 RW |
5541 | (define-public r-officer |
5542 | (package | |
5543 | (name "r-officer") | |
5544 | (version "0.3.2") | |
5545 | (source | |
5546 | (origin | |
5547 | (method url-fetch) | |
5548 | (uri (cran-uri "officer" version)) | |
5549 | (sha256 | |
5550 | (base32 | |
5551 | "14b6ii9h3fi5g8ja929mfhxps9r7x78flqjdy437y9aygkhmiz2i")))) | |
5552 | (build-system r-build-system) | |
5553 | (propagated-inputs | |
5554 | `(("r-base64enc" ,r-base64enc) | |
5555 | ("r-digest" ,r-digest) | |
5556 | ("r-htmltools" ,r-htmltools) | |
5557 | ("r-magrittr" ,r-magrittr) | |
5558 | ("r-r6" ,r-r6) | |
5559 | ("r-rcpp" ,r-rcpp) | |
5560 | ("r-uuid" ,r-uuid) | |
5561 | ("r-xml2" ,r-xml2) | |
5562 | ("r-zip" ,r-zip))) | |
5563 | (home-page "https://davidgohel.github.io/officer") | |
5564 | (synopsis "Manipulation of Word and PowerPoint documents") | |
5565 | (description | |
5566 | "This package provides tools to access and manipulate Word and PowerPoint | |
5567 | documents from R. The package focuses on tabular and graphical reporting from | |
5568 | R; it also provides two functions that let users get document content into | |
5569 | data objects. A set of functions lets add and remove images, tables and | |
5570 | paragraphs of text in new or existing documents. When working with PowerPoint | |
5571 | presentations, slides can be added or removed; shapes inside slides can also | |
5572 | be added or removed. When working with Word documents, a cursor can be used | |
5573 | to help insert or delete content at a specific location in the document.") | |
5574 | (license license:gpl3))) | |
5575 | ||
488dc4e1 RW |
5576 | (define-public r-abn |
5577 | (package | |
5578 | (name "r-abn") | |
fbd263cd | 5579 | (version "1.3") |
488dc4e1 RW |
5580 | (source |
5581 | (origin | |
5582 | (method url-fetch) | |
5583 | (uri (cran-uri "abn" version)) | |
5584 | (sha256 | |
5585 | (base32 | |
fbd263cd | 5586 | "1q9hzpxwg835711kxwygd0l2awal6f015f8s6fprwz7graz1wbbm")))) |
488dc4e1 RW |
5587 | (build-system r-build-system) |
5588 | (inputs | |
5589 | `(("gsl" ,gsl))) | |
5590 | (propagated-inputs | |
5591 | `(("r-cairo" ,r-cairo) | |
5592 | ("r-lme4" ,r-lme4) | |
5593 | ("r-mass" ,r-mass) | |
5594 | ("r-nnet" ,r-nnet) | |
5595 | ("r-rcpp" ,r-rcpp) | |
5596 | ("r-rcpparmadillo" ,r-rcpparmadillo) | |
5597 | ("r-rjags" ,r-rjags))) | |
5598 | (home-page "http://www.r-bayesian-networks.org") | |
5599 | (synopsis "Modelling multivariate data with additive bayesian networks") | |
5600 | (description | |
5601 | "Bayesian network analysis is a form of probabilistic graphical models | |
5602 | which derives from empirical data a directed acyclic graph, DAG, describing | |
5603 | the dependency structure between random variables. An additive Bayesian | |
5604 | network model consists of a form of a DAG where each node comprises a | |
5605 | @dfn{generalized linear model} (GLM). Additive Bayesian network models are | |
5606 | equivalent to Bayesian multivariate regression using graphical modelling, they | |
5607 | generalises the usual multivariable regression, GLM, to multiple dependent | |
5608 | variables. This package provides routines to help determine optimal Bayesian | |
5609 | network models for a given data set, where these models are used to identify | |
5610 | statistical dependencies in messy, complex data.") | |
5611 | (license license:gpl2+))) | |
5612 | ||
ffdeda3c RW |
5613 | (define-public r-acd |
5614 | (package | |
5615 | (name "r-acd") | |
5616 | (version "1.5.3") | |
5617 | (source | |
5618 | (origin | |
5619 | (method url-fetch) | |
5620 | (uri (cran-uri "ACD" version)) | |
5621 | (sha256 | |
5622 | (base32 | |
5623 | "1a67bi3hklq8nlc50r0qnyr4k7m9kpvijy8sqqpm54by5hsysfd6")))) | |
5624 | (properties `((upstream-name . "ACD"))) | |
5625 | (build-system r-build-system) | |
5626 | (home-page "https://cran.r-project.org/web/packages/ACD/") | |
5627 | (synopsis "Categorical data analysis with complete or missing responses") | |
5628 | (description | |
5629 | "This package provides tools for categorical data analysis with complete | |
5630 | or missing responses.") | |
5631 | (license license:gpl2+))) | |
5632 | ||
acbf23da RW |
5633 | (define-public r-acdm |
5634 | (package | |
5635 | (name "r-acdm") | |
5636 | (version "1.0.4") | |
5637 | (source | |
5638 | (origin | |
5639 | (method url-fetch) | |
5640 | (uri (cran-uri "ACDm" version)) | |
5641 | (sha256 | |
5642 | (base32 | |
5643 | "0b4f02ga5ra66mbrm79g0bnlzmii82rks9kmxixxqgf18yhlyjil")))) | |
5644 | (properties `((upstream-name . "ACDm"))) | |
5645 | (build-system r-build-system) | |
5646 | (propagated-inputs | |
5647 | `(("r-dplyr" ,r-dplyr) | |
5648 | ("r-ggplot2" ,r-ggplot2) | |
5649 | ("r-plyr" ,r-plyr) | |
5650 | ("r-rsolnp" ,r-rsolnp) | |
5651 | ("r-zoo" ,r-zoo))) | |
5652 | (home-page "https://cran.r-project.org/web/packages/ACDm/") | |
5653 | (synopsis "Tools for Autoregressive Conditional Duration Models") | |
5654 | (description | |
5655 | "ACDm is a package for Autoregressive Conditional Duration (ACD, Engle | |
5656 | and Russell, 1998) models. It creates trade, price or volume durations from | |
5657 | transactions (tic) data, performs diurnal adjustments, fits various ACD models | |
5658 | and tests them.") | |
5659 | (license license:gpl2+))) | |
5660 | ||
08bf097a RW |
5661 | (define-public r-overlap |
5662 | (package | |
5663 | (name "r-overlap") | |
5664 | (version "0.3.2") | |
5665 | (source | |
5666 | (origin | |
5667 | (method url-fetch) | |
5668 | (uri (cran-uri "overlap" version)) | |
5669 | (sha256 | |
5670 | (base32 | |
5671 | "1j3m6ir1chdz0si2fhcw6gs7c9h09bv0chz18rpzxsywww6d4rzy")))) | |
5672 | (build-system r-build-system) | |
5673 | (home-page "https://cran.r-project.org/web/packages/overlap/") | |
5674 | (synopsis "Estimates of coefficient of overlapping for animal activity patterns") | |
5675 | (description | |
5676 | "This package provides functions to fit kernel density functions to data | |
5677 | on temporal activity patterns of animals; estimate coefficients of overlapping | |
5678 | of densities for two species; and calculate bootstrap estimates of confidence | |
5679 | intervals.") | |
5680 | (license license:gpl3+))) | |
5681 | ||
bfee9ce8 RW |
5682 | (define-public r-snakecase |
5683 | (package | |
5684 | (name "r-snakecase") | |
5685 | (version "0.9.2") | |
5686 | (source | |
5687 | (origin | |
5688 | (method url-fetch) | |
5689 | (uri (cran-uri "snakecase" version)) | |
5690 | (sha256 | |
5691 | (base32 | |
5692 | "1g6xai53dl24ws0mwhqrkcv583ziaq505cv3z8v5dhjgy98kilyj")))) | |
5693 | (build-system r-build-system) | |
5694 | (propagated-inputs | |
5695 | `(("r-stringi" ,r-stringi) | |
5696 | ("r-stringr" ,r-stringr))) | |
5697 | (home-page "https://github.com/Tazinho/snakecase") | |
5698 | (synopsis "Convert strings into any case") | |
5699 | (description | |
5700 | "This package provides a consistent, flexible and easy to use tool to | |
5701 | parse and convert strings into cases like snake or camel among others.") | |
5702 | (license license:gpl3))) | |
5703 | ||
de059e4b RW |
5704 | (define-public r-prediction |
5705 | (package | |
5706 | (name "r-prediction") | |
12502bf4 | 5707 | (version "0.3.6.1") |
de059e4b RW |
5708 | (source |
5709 | (origin | |
5710 | (method url-fetch) | |
5711 | (uri (cran-uri "prediction" version)) | |
5712 | (sha256 | |
5713 | (base32 | |
12502bf4 | 5714 | "1znxpacd79fjkf84w3493p1vmafanqfxsspwpwpkmda323bsxj0n")))) |
de059e4b RW |
5715 | (build-system r-build-system) |
5716 | (propagated-inputs | |
5717 | `(("r-data-table" ,r-data-table))) | |
5718 | (home-page "https://github.com/leeper/prediction") | |
5719 | (synopsis "Tidy, type-safe prediction methods") | |
5720 | (description | |
5721 | "This package provides the @code{prediction()} function, a type-safe | |
5722 | alternative to @code{predict()} that always returns a data frame. The package | |
5723 | currently supports common model types (e.g., @code{\"lm\"}, @code{\"glm\"}) | |
5724 | from the @code{stats} package, as well as numerous other model classes from | |
5725 | other add-on packages.") | |
5726 | (license license:expat))) | |
5727 | ||
cfc06314 RW |
5728 | (define-public r-sjlabelled |
5729 | (package | |
5730 | (name "r-sjlabelled") | |
2766d343 | 5731 | (version "1.0.16") |
cfc06314 RW |
5732 | (source |
5733 | (origin | |
5734 | (method url-fetch) | |
5735 | (uri (cran-uri "sjlabelled" version)) | |
5736 | (sha256 | |
5737 | (base32 | |
2766d343 | 5738 | "1zi1ncna16zl9hcy7mzara4kjxqkgwcw9ncp388ss353wwc9y2nc")))) |
cfc06314 RW |
5739 | (build-system r-build-system) |
5740 | (propagated-inputs | |
5741 | `(("r-broom" ,r-broom) | |
5742 | ("r-dplyr" ,r-dplyr) | |
5743 | ("r-haven" ,r-haven) | |
5744 | ("r-magrittr" ,r-magrittr) | |
5745 | ("r-prediction" ,r-prediction) | |
5746 | ("r-purrr" ,r-purrr) | |
5747 | ("r-rlang" ,r-rlang) | |
2766d343 | 5748 | ("r-snakecase" ,r-snakecase))) |
cfc06314 RW |
5749 | (home-page "https://github.com/strengejacke/sjlabelled") |
5750 | (synopsis "Labelled data utility functions") | |
5751 | (description | |
5752 | "This package provides a collection of functions dealing with labelled | |
5753 | data, like reading and writing data between R and other statistical software | |
5754 | packages. This includes easy ways to get, set or change value and variable | |
5755 | label attributes, to convert labelled vectors into factors or numeric (and | |
5756 | vice versa), or to deal with multiple declared missing values.") | |
5757 | (license license:gpl3))) | |
5758 | ||
1f560b9c RW |
5759 | (define-public r-sjmisc |
5760 | (package | |
5761 | (name "r-sjmisc") | |
e45f4a4d | 5762 | (version "2.7.7") |
1f560b9c RW |
5763 | (source |
5764 | (origin | |
5765 | (method url-fetch) | |
5766 | (uri (cran-uri "sjmisc" version)) | |
5767 | (sha256 | |
5768 | (base32 | |
e45f4a4d | 5769 | "0xm9pmq17maivmjsygwx3bdjd71hf829qbx735hyxa69z9dhp24q")))) |
1f560b9c RW |
5770 | (build-system r-build-system) |
5771 | (propagated-inputs | |
5772 | `(("r-broom" ,r-broom) | |
5773 | ("r-crayon" ,r-crayon) | |
5774 | ("r-dplyr" ,r-dplyr) | |
5775 | ("r-haven" ,r-haven) | |
5776 | ("r-magrittr" ,r-magrittr) | |
1f560b9c RW |
5777 | ("r-purrr" ,r-purrr) |
5778 | ("r-rlang" ,r-rlang) | |
5779 | ("r-sjlabelled" ,r-sjlabelled) | |
5780 | ("r-stringdist" ,r-stringdist) | |
5781 | ("r-stringr" ,r-stringr) | |
84d0d860 | 5782 | ("r-tidyr" ,r-tidyr))) |
1f560b9c RW |
5783 | (home-page "https://github.com/strengejacke/sjmisc") |
5784 | (synopsis "Data and variable transformation functions") | |
5785 | (description | |
5786 | "This package is a collection of miscellaneous utility functions, | |
5787 | supporting data transformation tasks like recoding, dichotomizing or grouping | |
5788 | variables, setting and replacing missing values. The data transformation | |
5789 | functions also support labelled data, and all integrate seamlessly into a | |
5790 | tidyverse workflow.") | |
5791 | (license license:gpl3))) | |
5792 | ||
aaed237d RW |
5793 | (define-public r-nortest |
5794 | (package | |
5795 | (name "r-nortest") | |
5796 | (version "1.0-4") | |
5797 | (source | |
5798 | (origin | |
5799 | (method url-fetch) | |
5800 | (uri (cran-uri "nortest" version)) | |
5801 | (sha256 | |
5802 | (base32 | |
5803 | "17r0wpz72z9312c70nwi1i1kp1v9fm1h6jg7q5cx1mc1h420m1d3")))) | |
5804 | (build-system r-build-system) | |
5805 | (home-page "https://cran.r-project.org/web/packages/nortest/") | |
5806 | (synopsis "Tests for normality") | |
5807 | (description | |
5808 | "This package provides five omnibus tests for testing the composite | |
5809 | hypothesis of normality.") | |
5810 | (license license:gpl2+))) | |
5811 | ||
0fd7d59d RW |
5812 | (define-public r-moonbook |
5813 | (package | |
5814 | (name "r-moonbook") | |
5815 | (version "0.2.3") | |
5816 | (source | |
5817 | (origin | |
5818 | (method url-fetch) | |
5819 | (uri (cran-uri "moonBook" version)) | |
5820 | (sha256 | |
5821 | (base32 | |
5822 | "0hys56mwbm776ff7dibi8wzyf69qiais9rs1jazv79lk6h56s9s6")))) | |
5823 | (properties `((upstream-name . "moonBook"))) | |
5824 | (build-system r-build-system) | |
5825 | (propagated-inputs | |
5826 | `(("r-magrittr" ,r-magrittr) | |
5827 | ("r-nortest" ,r-nortest) | |
5828 | ("r-purrr" ,r-purrr) | |
5829 | ("r-sjmisc" ,r-sjmisc) | |
5830 | ("r-stringr" ,r-stringr) | |
5831 | ("r-survival" ,r-survival))) | |
5832 | (home-page "https://github.com/cardiomoon/moonBook") | |
5833 | (synopsis "Functions and datasets for the book by Keon-Woong Moon") | |
5834 | (description | |
5835 | "This package provides several analysis-related functions for the book | |
5836 | entitled \"R statistics and graph for medical articles\" (written in Korean), | |
5837 | version 1, by Keon-Woong Moon with Korean demographic data with several plot | |
5838 | functions.") | |
5839 | (license license:gpl2))) | |
5840 | ||
589bd1c4 RW |
5841 | (define-public r-flextable |
5842 | (package | |
5843 | (name "r-flextable") | |
244a5c43 | 5844 | (version "0.4.6") |
589bd1c4 RW |
5845 | (source |
5846 | (origin | |
5847 | (method url-fetch) | |
5848 | (uri (cran-uri "flextable" version)) | |
5849 | (sha256 | |
5850 | (base32 | |
244a5c43 | 5851 | "0fa42dvf0wyl91w4v0rywm3xgw9n03cfyl28ficrv8iabz4k4382")))) |
589bd1c4 RW |
5852 | (build-system r-build-system) |
5853 | (propagated-inputs | |
5854 | `(("r-gdtools" ,r-gdtools) | |
5855 | ("r-htmltools" ,r-htmltools) | |
5856 | ("r-knitr" ,r-knitr) | |
5857 | ("r-officer" ,r-officer) | |
5858 | ("r-r6" ,r-r6) | |
5859 | ("r-rmarkdown" ,r-rmarkdown) | |
5860 | ("r-stringr" ,r-stringr) | |
5861 | ("r-xml2" ,r-xml2))) | |
5862 | (home-page "https://davidgohel.github.io/flextable") | |
5863 | (synopsis "Functions for tabular reporting") | |
5864 | (description | |
5865 | "This package provides tools to create pretty tables for HTML documents | |
5866 | and other formats. Functions are provided to let users create tables, modify | |
5867 | and format their content. It extends the @code{officer} package and can be | |
5868 | used within R markdown documents when rendering to HTML and to Word | |
5869 | documents.") | |
5870 | (license license:gpl3))) | |
5871 | ||
846325a8 RW |
5872 | (define-public r-writexl |
5873 | (package | |
5874 | (name "r-writexl") | |
04a18a81 | 5875 | (version "1.1") |
846325a8 RW |
5876 | (source |
5877 | (origin | |
5878 | (method url-fetch) | |
5879 | (uri (cran-uri "writexl" version)) | |
5880 | (sha256 | |
5881 | (base32 | |
04a18a81 | 5882 | "0w4wnpl3yhaqp63p32bk60xrbmd7xd11kxifjbzrghi7d4483a46")))) |
846325a8 RW |
5883 | (build-system r-build-system) |
5884 | (inputs `(("zlib" ,zlib))) | |
5885 | (home-page "https://github.com/ropensci/writexl") | |
5886 | (synopsis "Export data frames to xlsx format") | |
5887 | (description | |
5888 | "This package provides a data frame to xlsx exporter based on | |
5889 | libxlsxwriter.") | |
5890 | (license license:bsd-2))) | |
64abd245 RW |
5891 | |
5892 | (define-public r-biasedurn | |
5893 | (package | |
5894 | (name "r-biasedurn") | |
5895 | (version "1.07") | |
5896 | (source | |
5897 | (origin | |
5898 | (method url-fetch) | |
5899 | (uri (cran-uri "BiasedUrn" version)) | |
5900 | (sha256 | |
5901 | (base32 | |
5902 | "13i2lgfnjhlbbm2yxfc2l5hswqw6x03pwba5csjmirv8kpjw4xr3")))) | |
5903 | (properties `((upstream-name . "BiasedUrn"))) | |
5904 | (build-system r-build-system) | |
5905 | (home-page "https://cran.r-project.org/web/packages/BiasedUrn/") | |
5906 | (synopsis "Biased Urn model distributions") | |
5907 | (description | |
5908 | "This package provides statistical models of biased sampling in the form | |
5909 | of univariate and multivariate noncentral hypergeometric distributions, | |
5910 | including Wallenius' noncentral hypergeometric distribution and Fisher's | |
5911 | noncentral hypergeometric distribution (also called extended hypergeometric | |
5912 | distribution).") | |
5913 | (license license:gpl3))) | |
87ba9508 RW |
5914 | |
5915 | (define-public r-goplot | |
5916 | (package | |
5917 | (name "r-goplot") | |
5918 | (version "1.0.2") | |
5919 | (source | |
5920 | (origin | |
5921 | (method url-fetch) | |
5922 | (uri (cran-uri "GOplot" version)) | |
5923 | (sha256 | |
5924 | (base32 | |
5925 | "1y8dv0kbzpr9za91njw0x233vx5d13vqml9hmpddcyi9s6va5nix")))) | |
5926 | (properties `((upstream-name . "GOplot"))) | |
5927 | (build-system r-build-system) | |
5928 | (propagated-inputs | |
5929 | `(("r-ggdendro" ,r-ggdendro) | |
5930 | ("r-ggplot2" ,r-ggplot2) | |
5931 | ("r-gridextra" ,r-gridextra) | |
5932 | ("r-rcolorbrewer" ,r-rcolorbrewer))) | |
5933 | (home-page "https://github.com/wencke/wencke.github.io") | |
5934 | (synopsis "Visualization of functional analysis data") | |
5935 | (description | |
5936 | "This package provides an implementation of multilayered visualizations | |
5937 | for enhanced graphical representation of functional analysis data. It | |
5938 | combines and integrates omics data derived from expression and functional | |
5939 | annotation enrichment analyses. Its plotting functions have been developed | |
5940 | with an hierarchical structure in mind: starting from a general overview to | |
5941 | identify the most enriched categories (modified bar plot, bubble plot) to a | |
5942 | more detailed one displaying different types of relevant information for the | |
5943 | molecules in a given set of categories (circle plot, chord plot, cluster plot, | |
5944 | Venn diagram, heatmap).") | |
5945 | (license license:gpl2))) | |
aec7d6be RW |
5946 | |
5947 | (define-public r-getopt | |
5948 | (package | |
5949 | (name "r-getopt") | |
5950 | (version "1.20.2") | |
5951 | (source | |
5952 | (origin | |
5953 | (method url-fetch) | |
5954 | (uri (cran-uri "getopt" version)) | |
5955 | (sha256 | |
5956 | (base32 | |
5957 | "13p35lbpy7i578752fa71sbfvcsqw5qfa9p6kf8b5m3c5p9i4v1x")))) | |
5958 | (build-system r-build-system) | |
5959 | (home-page "https://github.com/trevorld/getopt") | |
5960 | (synopsis "Command-line option processor for R") | |
5961 | (description | |
5962 | "This package is designed to be used with Rscript to write shebang | |
5963 | scripts that accept short and long options. Many users will prefer to | |
5964 | use the packages @code{optparse} or @code{argparse} which add extra | |
5965 | features like automatically generated help options and usage texts, | |
5966 | support for default values, positional argument support, etc.") | |
5967 | (license license:gpl2+))) | |
3629622b RW |
5968 | |
5969 | (define-public r-findpython | |
5970 | (package | |
5971 | (name "r-findpython") | |
f0867a0e | 5972 | (version "1.0.4") |
3629622b RW |
5973 | (source |
5974 | (origin | |
5975 | (method url-fetch) | |
5976 | (uri (cran-uri "findpython" version)) | |
5977 | (sha256 | |
5978 | (base32 | |
f0867a0e | 5979 | "1zfcdcp4d48d2pzf5n59kqrfk2z9nnyzkx5j00gfmgfkadnv93x5")))) |
3629622b RW |
5980 | (build-system r-build-system) |
5981 | (home-page "https://github.com/trevorld/findpython") | |
5982 | (synopsis "Functions to find an acceptable Python binary") | |
5983 | (description | |
5984 | "This package was designed to find an acceptable Python binary that | |
5985 | matches version and feature constraints.") | |
5986 | (license license:expat))) | |
fa697599 RW |
5987 | |
5988 | ;; This in not the same as "r-argparser" | |
5989 | (define-public r-argparse | |
5990 | (package | |
5991 | (name "r-argparse") | |
11a36548 | 5992 | (version "2.0.0") |
fa697599 RW |
5993 | (source |
5994 | (origin | |
5995 | (method url-fetch) | |
5996 | (uri (cran-uri "argparse" version)) | |
5997 | (sha256 | |
5998 | (base32 | |
11a36548 | 5999 | "1qrp7hc8sm6ryw0zws76al865ansig1xbx8ljxz4wabh60msrz3i")))) |
fa697599 RW |
6000 | (build-system r-build-system) |
6001 | (inputs `(("python" ,python))) | |
6002 | (propagated-inputs | |
6003 | `(("r-findpython" ,r-findpython) | |
6004 | ("r-getopt" ,r-getopt) | |
6005 | ("r-jsonlite" ,r-jsonlite) | |
11a36548 | 6006 | ("r-r6" ,r-r6))) |
fa697599 RW |
6007 | (home-page "https://github.com/trevorld/argparse") |
6008 | (synopsis "Command line optional and positional argument parser") | |
6009 | (description | |
6010 | "This package provides a command line parser to be used with Rscript to | |
6011 | write shebang scripts that gracefully accept positional and optional arguments | |
6012 | and automatically generate usage notices.") | |
6013 | (license license:gpl2+))) | |
4646d18e RW |
6014 | |
6015 | (define-public r-hash | |
6016 | (package | |
6017 | (name "r-hash") | |
6018 | (version "2.2.6") | |
6019 | (source | |
6020 | (origin | |
6021 | (method url-fetch) | |
6022 | (uri (cran-uri "hash" version)) | |
6023 | (sha256 | |
6024 | (base32 | |
6025 | "0mkx59bmni3b283znvbndnkbar85fzavzdfgmwrhskidsqcz34yz")))) | |
6026 | (build-system r-build-system) | |
6027 | (home-page "https://cran.r-project.org/web/packages/hash/") | |
6028 | (synopsis "Implementation of hash/associated arrays/dictionaries") | |
6029 | (description | |
6030 | "This package implements a data structure similar to hashes in Perl and | |
6031 | dictionaries in Python but with a purposefully R flavor. For objects of | |
6032 | appreciable size, access using hashes outperforms native named lists and | |
6033 | vectors.") | |
6034 | (license license:gpl2+))) | |
06a45ad6 RW |
6035 | |
6036 | (define-public r-orddom | |
6037 | (package | |
6038 | (name "r-orddom") | |
6039 | (version "3.1") | |
6040 | (source | |
6041 | (origin | |
6042 | (method url-fetch) | |
6043 | (uri (cran-uri "orddom" version)) | |
6044 | (sha256 | |
6045 | (base32 | |
6046 | "165axs15fvwhrp89xd87l81q3h2qjll1vrwcsap645cwvb85nwsh")))) | |
6047 | (build-system r-build-system) | |
6048 | (propagated-inputs `(("r-psych" ,r-psych))) | |
6049 | (home-page "https://cran.r-project.org/web/packages/orddom/") | |
6050 | (synopsis "Ordinal dominance statistics") | |
6051 | (description | |
6052 | "This package provides tools to compute ordinal, statistics and effect | |
6053 | sizes as an alternative to mean comparison: Cliff's delta or success rate | |
6054 | difference (SRD), Vargha and Delaney's A or the Area Under a Receiver | |
6055 | Operating Characteristic Curve (AUC), the discrete type of McGraw & Wong's | |
6056 | Common Language Effect Size (CLES) or Grissom & Kim's Probability of | |
6057 | Superiority (PS), and the Number needed to treat (NNT) effect size. Moreover, | |
6058 | comparisons to Cohen's d are offered based on Huberty & Lowman's Percentage of | |
6059 | Group (Non-)Overlap considerations.") | |
6060 | (license license:gpl2))) | |
0fccd15f RW |
6061 | |
6062 | (define-public r-doby | |
6063 | (package | |
6064 | (name "r-doby") | |
cb96d81b | 6065 | (version "4.6-2") |
0fccd15f RW |
6066 | (source |
6067 | (origin | |
6068 | (method url-fetch) | |
6069 | (uri (cran-uri "doBy" version)) | |
6070 | (sha256 | |
6071 | (base32 | |
cb96d81b | 6072 | "02vbv9nfgywg6lsiialkmfnax5z3rkyb9nr8j9l2cp8xi6ml95mb")))) |
0fccd15f RW |
6073 | (properties `((upstream-name . "doBy"))) |
6074 | (build-system r-build-system) | |
6075 | (propagated-inputs | |
6076 | `(("r-dplyr" ,r-dplyr) | |
6077 | ("r-magrittr" ,r-magrittr) | |
6078 | ("r-mass" ,r-mass) | |
6079 | ("r-matrix" ,r-matrix) | |
6080 | ("r-plyr" ,r-plyr))) | |
6081 | (home-page "http://people.math.aau.dk/~sorenh/software/doBy/") | |
6082 | (synopsis "Groupwise statistics, LSmeans, linear contrasts, and utilities") | |
6083 | (description | |
6084 | "This package contains: | |
6085 | ||
6086 | @itemize | |
6087 | @item facilities for working with grouped data: @code{do} | |
6088 | something to data stratified @code{by} some variables. | |
6089 | @item implementations of least-squares means, general linear contrasts, and | |
6090 | @item miscellaneous other utilities. | |
6091 | @end itemize\n") | |
6092 | (license license:gpl2+))) | |
5850c5b3 RW |
6093 | |
6094 | (define-public r-refgenome | |
6095 | (package | |
6096 | (name "r-refgenome") | |
2652e253 | 6097 | (version "1.7.3.1") |
5850c5b3 RW |
6098 | (source |
6099 | (origin | |
6100 | (method url-fetch) | |
6101 | (uri (cran-uri "refGenome" version)) | |
6102 | (sha256 | |
6103 | (base32 | |
2652e253 | 6104 | "1s4lxv5pqk6d0f0a9iclgv88yl346fwvzgraxh0gwpbym1yhh787")))) |
5850c5b3 RW |
6105 | (properties `((upstream-name . "refGenome"))) |
6106 | (build-system r-build-system) | |
6107 | (propagated-inputs | |
6108 | `(("r-dbi" ,r-dbi) | |
6109 | ("r-doby" ,r-doby) | |
6110 | ("r-rsqlite" ,r-rsqlite))) | |
6111 | (home-page "https://cran.r-project.org/web/packages/refGenome/") | |
6112 | (synopsis | |
6113 | "Gene and splice site annotation using annotation data from Ensembl and UCSC") | |
6114 | (description | |
6115 | "This package contains functionality for importing and managing of | |
6116 | downloaded genome annotation data from the Ensembl genome browser (European | |
6117 | Bioinformatics Institute) and from the UCSC genome browser (University of | |
6118 | California, Santa Cruz) and annotation routines for genomic positions and | |
6119 | splice site positions.") | |
6120 | (license license:gpl2))) | |
ff7d53a7 RW |
6121 | |
6122 | (define-public r-basix | |
6123 | (package | |
6124 | (name "r-basix") | |
6125 | (version "1.1") | |
6126 | (source | |
6127 | (origin | |
6128 | (method url-fetch) | |
6129 | (uri (cran-uri "BASIX" version)) | |
6130 | (sha256 | |
6131 | (base32 | |
6132 | "18dkvv1iwskfnlpl6xridcgqpalbbpm2616mvc3hfrc0b26v01id")))) | |
6133 | (properties `((upstream-name . "BASIX"))) | |
6134 | (build-system r-build-system) | |
6135 | (home-page "https://cran.r-project.org/web/packages/BASIX/") | |
6136 | (synopsis "Efficient C/C++ toolset for R") | |
6137 | (description | |
6138 | "BASIX provides some efficient C/C++ implementations of native R | |
6139 | procedures to speed up calculations in R.") | |
6140 | (license license:gpl2))) | |
65e74814 RW |
6141 | |
6142 | (define-public r-blockfest | |
6143 | (package | |
6144 | (name "r-blockfest") | |
6145 | (version "1.6") | |
6146 | (source | |
6147 | (origin | |
6148 | (method url-fetch) | |
6149 | (uri (cran-uri "BlockFeST" version)) | |
6150 | (sha256 | |
6151 | (base32 | |
6152 | "0hj7a5as7nxbgjac7lbj6qfwffx3g8x8phpf9a55f1c9cdzi73a5")))) | |
6153 | (properties `((upstream-name . "BlockFeST"))) | |
6154 | (build-system r-build-system) | |
6155 | (propagated-inputs `(("r-basix" ,r-basix))) | |
6156 | (home-page "https://cran.r-project.org/web/packages/BlockFeST/") | |
6157 | (synopsis "Bayesian calculation of region-specific fixation index") | |
6158 | (description | |
6159 | "This package provides an R implementation of an extension of the | |
6160 | BayeScan software for codominant markers, adding the option to group | |
6161 | individual SNPs into pre-defined blocks. A typical application of this new | |
6162 | approach is the identification of genomic regions, genes, or gene sets | |
6163 | containing one or more SNPs that evolved under directional selection.") | |
6164 | (license license:gpl2))) | |
b9ff2599 | 6165 | |
fbdf05b1 RW |
6166 | (define-public r-proc |
6167 | (package | |
6168 | (name "r-proc") | |
464676a9 | 6169 | (version "1.13.0") |
fbdf05b1 RW |
6170 | (source |
6171 | (origin | |
6172 | (method url-fetch) | |
6173 | (uri (cran-uri "pROC" version)) | |
6174 | (sha256 | |
6175 | (base32 | |
464676a9 | 6176 | "0ain17clympkx09ym7gydylcd93096dxzqx1qzci310yq2l7fknm")))) |
fbdf05b1 RW |
6177 | (properties `((upstream-name . "pROC"))) |
6178 | (build-system r-build-system) | |
6179 | (propagated-inputs | |
6180 | `(("r-ggplot2" ,r-ggplot2) | |
6181 | ("r-plyr" ,r-plyr) | |
6182 | ("r-rcpp" ,r-rcpp))) | |
6183 | (home-page "http://expasy.org/tools/pROC/") | |
6184 | (synopsis "Display and analyze ROC curves") | |
6185 | (description | |
6186 | "This package provides tools for visualizing, smoothing and comparing | |
6187 | receiver operating characteristic (ROC curves). The area under the | |
6188 | curve (AUC) can be compared with statistical tests based on U-statistics or | |
6189 | bootstrap. Confidence intervals can be computed for (p)AUC or ROC curves.") | |
6190 | (license license:gpl3+))) | |
cea4d360 RW |
6191 | |
6192 | (define-public r-rootsolve | |
6193 | (package | |
6194 | (name "r-rootsolve") | |
6195 | (version "1.7") | |
6196 | (source | |
6197 | (origin | |
6198 | (method url-fetch) | |
6199 | (uri (cran-uri "rootSolve" version)) | |
6200 | (sha256 | |
6201 | (base32 | |
6202 | "08ic6ggcc5dw4nv9xsqkm3vnvswmxyhnqnv1rdjv1h2gy1ivpcq8")))) | |
6203 | (properties `((upstream-name . "rootSolve"))) | |
6204 | (build-system r-build-system) | |
6205 | (native-inputs `(("gfortran" ,gfortran))) | |
6206 | (home-page "https://cran.r-project.org/web/packages/rootSolve/") | |
6207 | (synopsis "Tools for the analysis of ordinary differential equations") | |
6208 | (description | |
6209 | "This package provides routines to find the root of nonlinear functions, | |
6210 | and to perform steady-state and equilibrium analysis of @dfn{ordinary | |
6211 | differential equations} (ODE). It includes routines that: | |
6212 | ||
6213 | @enumerate | |
6214 | @item generate gradient and jacobian matrices (full and banded), | |
6215 | @item find roots of non-linear equations by the Newton-Raphson method, | |
6216 | @item estimate steady-state conditions of a system of (differential) equations | |
6217 | in full, banded or sparse form, using the Newton-Raphson method, or by | |
6218 | dynamically running, | |
6219 | @item solve the steady-state conditions for uni- and multicomponent 1-D, 2-D, | |
6220 | and 3-D partial differential equations, that have been converted to ordinary | |
6221 | differential equations by numerical differencing (using the method-of-lines | |
6222 | approach). | |
6223 | @end enumerate\n") | |
6224 | (license license:gpl2+))) | |
c994418b | 6225 | |
6226 | (define-public r-abcanalysis | |
6227 | (package | |
6228 | (name "r-abcanalysis") | |
6229 | (version "1.2.1") | |
6230 | (source | |
6231 | (origin | |
6232 | (method url-fetch) | |
6233 | (uri (cran-uri "ABCanalysis" version)) | |
6234 | (sha256 | |
6235 | (base32 "0wac1ksmnxa36v99ca4hv8k0rsh3igwpcllmlv9wf7i9kgqviqwi")))) | |
6236 | (properties `((upstream-name . "ABCanalysis"))) | |
6237 | (build-system r-build-system) | |
6238 | (propagated-inputs `(("r-plotrix" ,r-plotrix))) | |
6239 | (home-page "https://www.uni-marburg.de/fb12/arbeitsgruppen/datenbionik/software-en/") | |
6240 | (synopsis "Computed ABC Analysis") | |
6241 | (description | |
6242 | "Multivariate data sets often differ in several factors or derived statistical | |
6243 | parameters, which have to be selected for a valid interpretation. Basing this | |
6244 | selection on traditional statistical limits leads occasionally to the perception | |
6245 | of losing information from a data set. This package provides tools to calculate | |
6246 | these limits on the basis of the mathematical properties of the distribution of | |
6247 | the analyzed items.") | |
6248 | (license license:gpl3))) | |
87b576aa | 6249 | |
6250 | (define-public r-slam | |
6251 | (package | |
6252 | (name "r-slam") | |
de7631b2 | 6253 | (version "0.1-44") |
87b576aa | 6254 | (source |
6255 | (origin | |
6256 | (method url-fetch) | |
6257 | (uri (cran-uri "slam" version)) | |
6258 | (sha256 | |
de7631b2 | 6259 | (base32 "11n956kid70931z0qyiql3v7nac1cfkamq44kzf9wl670pf8b033")))) |
87b576aa | 6260 | (build-system r-build-system) |
6261 | (home-page "https://cran.r-project.org/web/packages/slam/") | |
6262 | (synopsis "Sparse lightweight arrays and matrices") | |
6263 | (description | |
6264 | "This package contains data structures and algorithms for sparse arrays and matrices, | |
6265 | based on index arrays and simple triplet representations, respectively.") | |
6266 | (license license:gpl2))) | |
881cc61c | 6267 | |
6268 | (define-public r-manipulatewidget | |
6269 | (package | |
6270 | (name "r-manipulatewidget") | |
6271 | (version "0.10.0") | |
6272 | (source | |
6273 | (origin | |
6274 | (method url-fetch) | |
6275 | (uri (cran-uri "manipulateWidget" version)) | |
6276 | (sha256 | |
6277 | (base32 "1zagrbwkn2d50zzw8i2vyb1hsq4cydmfsqiy1a2qlp6zrv8a6q9x")))) | |
6278 | (properties | |
6279 | `((upstream-name . "manipulateWidget"))) | |
6280 | (build-system r-build-system) | |
6281 | (propagated-inputs | |
6282 | `(("r-base64enc" ,r-base64enc) | |
6283 | ("r-codetools" ,r-codetools) | |
6284 | ("r-htmltools" ,r-htmltools) | |
6285 | ("r-htmlwidgets" ,r-htmlwidgets) | |
6286 | ("r-knitr" ,r-knitr) | |
6287 | ("r-miniui" ,r-miniui) | |
6288 | ("r-shiny" ,r-shiny) | |
6289 | ("r-webshot" ,r-webshot))) | |
6290 | (home-page "https://github.com/rte-antares-rpackage/manipulateWidget/") | |
6291 | (synopsis "Add even more interactivity to interactive charts") | |
6292 | (description | |
6293 | "This package lets you create in just a few lines of R code a nice user interface to | |
6294 | modify the data or the graphical parameters of one or multiple interactive | |
6295 | charts. It is useful to quickly explore visually some data or for package | |
6296 | developers to generate user interfaces easy to maintain.") | |
6297 | (license license:gpl2+))) | |
16b0e8da | 6298 | |
6299 | (define-public r-a3 | |
6300 | (package | |
6301 | (name "r-a3") | |
6302 | (version "1.0.0") | |
6303 | (source | |
6304 | (origin | |
6305 | (method url-fetch) | |
6306 | (uri (cran-uri "A3" version)) | |
6307 | (sha256 | |
6308 | (base32 "017hq9pjsv1h9i7cqk5cfx27as54shlhdsdvr6jkhb8jfkpdb6cw")))) | |
6309 | (properties `((upstream-name . "A3"))) | |
6310 | (build-system r-build-system) | |
6311 | (propagated-inputs | |
6312 | `(("r-pbapply" ,r-pbapply) | |
6313 | ("r-xtable" ,r-xtable))) | |
6314 | (home-page "https://cran.r-project.org/web/packages/A3/") | |
6315 | (synopsis "Error metrics for predictive models") | |
6316 | (description | |
6317 | "This package supplies tools for tabulating and analyzing the results of predictive | |
6318 | models. The methods employed are applicable to virtually any predictive model | |
6319 | and make comparisons between different methodologies straightforward.") | |
6320 | (license license:gpl2+))) | |
59b55def RW |
6321 | |
6322 | (define-public r-infotheo | |
6323 | (package | |
6324 | (name "r-infotheo") | |
6325 | (version "1.2.0") | |
6326 | (source | |
6327 | (origin | |
6328 | (method url-fetch) | |
6329 | (uri (cran-uri "infotheo" version)) | |
6330 | (sha256 | |
6331 | (base32 | |
6332 | "18xacczfq3z3xpy434js4nf3l19lczngzd0lq26wh22pvg1yniwv")))) | |
6333 | (build-system r-build-system) | |
6334 | (home-page "http://homepage.meyerp.com/software") | |
6335 | (synopsis "Information-theoretic measures") | |
6336 | (description | |
6337 | "This package implements various measures of information theory based on | |
6338 | several entropy estimators.") | |
6339 | (license license:gpl3+))) | |
9e21f217 | 6340 | |
6341 | (define-public r-abcoptim | |
6342 | (package | |
6343 | (name "r-abcoptim") | |
6344 | (version "0.15.0") | |
6345 | (source | |
6346 | (origin | |
6347 | (method url-fetch) | |
6348 | (uri (cran-uri "ABCoptim" version)) | |
6349 | (sha256 | |
6350 | (base32 "1ih0xk88qhsmpvnxf56041wx5sk8as2f4f2gdnpnwdym9mbr9n4b")))) | |
6351 | (properties `((upstream-name . "ABCoptim"))) | |
6352 | (build-system r-build-system) | |
6353 | (propagated-inputs `(("r-rcpp" ,r-rcpp))) | |
6354 | (home-page "https://github.com/gvegayon/ABCoptim/") | |
6355 | (synopsis "Optimization of Artificial Bee Colony algorithm") | |
6356 | (description | |
6357 | "Artificial Bee Colony (ABC) is one of the most recently defined algorithms by Dervis | |
6358 | Karaboga in 2005, motivated by the intelligent behavior of honey bees. It is as | |
6359 | simple as Particle Swarm Optimization (PSO) and Differential Evolution (DE) | |
6360 | algorithms, and uses only common control parameters such as colony size and | |
6361 | maximum cycle number. The @code{r-abcoptim} implements the Artificial bee | |
6362 | colony optimization algorithm @url{http://mf.erciyes.edu.tr/abc/pub/tr06_2005.pdf}. | |
6363 | This version is a work-in-progress and is written in R code.") | |
6364 | (license license:expat))) | |
40c10917 | 6365 | |
6366 | (define-public r-abcp2 | |
6367 | (package | |
6368 | (name "r-abcp2") | |
6369 | (version "1.2") | |
6370 | (source | |
6371 | (origin | |
6372 | (method url-fetch) | |
6373 | (uri (cran-uri "ABCp2" version)) | |
6374 | (sha256 | |
6375 | (base32 "1s2skkxpzss7c29i8600psgrp0hl46jcrxqrmy2b4db8hc0kcnbx")))) | |
6376 | (properties `((upstream-name . "ABCp2"))) | |
6377 | (build-system r-build-system) | |
6378 | (propagated-inputs `(("r-mass" ,r-mass))) | |
6379 | (home-page "https://cran.r-project.org/web/packages/ABCp2/") | |
6380 | (synopsis "Approximate Bayesian Computational Model for Estimating P2") | |
6381 | (description | |
6382 | "This package tests the goodness of fit of a distribution of offspring to the Normal, | |
6383 | Poisson, and Gamma distribution and estimates the proportional paternity of the | |
6384 | second male (P2) based on the best fit distribution.") | |
6385 | (license license:gpl2))) | |
cadc10a5 | 6386 | |
6387 | (define-public r-abcrf | |
6388 | (package | |
6389 | (name "r-abcrf") | |
6390 | (version "1.7.1") | |
6391 | (source | |
6392 | (origin | |
6393 | (method url-fetch) | |
6394 | (uri (cran-uri "abcrf" version)) | |
6395 | (sha256 | |
6396 | (base32 "06vy3inikrr9hv36q4djhrgzi9zizdfnhz17wpra8kadmr7qj441")))) | |
6397 | (build-system r-build-system) | |
6398 | (propagated-inputs | |
6399 | `(("r-mass" ,r-mass) | |
6400 | ("r-matrixstats" ,r-matrixstats) | |
6401 | ("r-ranger" ,r-ranger) | |
6402 | ("r-rcpp" ,r-rcpp) | |
6403 | ("r-rcpparmadillo" ,r-rcpparmadillo) | |
6404 | ("r-readr" ,r-readr) | |
6405 | ("r-stringr" ,r-stringr))) | |
6406 | (home-page "https://cran.r-project.org/web/packages/abcrf/") | |
6407 | (synopsis "Approximate bayesian computation via random forests") | |
6408 | (description | |
6409 | "This package performs approximate bayesian computation (ABC) model choice and | |
6410 | parameter inference via random forests. This machine learning tool named random | |
6411 | forests (RF) can conduct selection among the highly complex models covered by | |
6412 | ABC algorithms.") | |
6413 | (license license:gpl2+))) | |
12da2a5e | 6414 | |
6415 | (define-public r-abctools | |
6416 | (package | |
6417 | (name "r-abctools") | |
6418 | (version "1.1.3") | |
6419 | (source | |
6420 | (origin | |
6421 | (method url-fetch) | |
6422 | (uri (cran-uri "abctools" version)) | |
6423 | (sha256 | |
6424 | (base32 "07s9dg10i8lsxl73b4n2hynca2fjgb0ykb0dz8c3zv6cgw3cyx97")))) | |
6425 | (build-system r-build-system) | |
6426 | (propagated-inputs | |
6427 | `(("r-abc" ,r-abc) | |
6428 | ("r-abind" ,r-abind) | |
6429 | ("r-hmisc" ,r-hmisc) | |
6430 | ("r-plyr" ,r-plyr))) | |
6431 | (home-page "https://github.com/dennisprangle/abctools/") | |
6432 | (synopsis "Tools for ABC analyses") | |
6433 | (description | |
6434 | "This @code{r-abctools} package provides tools for approximate Bayesian computation | |
6435 | including summary statistic selection and assessing coverage. This includes | |
6436 | recent dimension reduction algorithms to tune the choice of summary statistics, | |
6437 | and coverage methods to tune the choice of threshold.") | |
6438 | (license license:gpl2+))) | |
77b33e0e | 6439 | |
6440 | (define-public r-ggstance | |
6441 | (package | |
6442 | (name "r-ggstance") | |
6443 | (version "0.3.1") | |
6444 | (source | |
6445 | (origin | |
6446 | (method url-fetch) | |
6447 | (uri (cran-uri "ggstance" version)) | |
6448 | (sha256 | |
6449 | (base32 "0v7f3xdaaridw6d4jvnsfwxmpjrasvx5vl555wsrn50aah17fkvh")))) | |
6450 | (build-system r-build-system) | |
6451 | (propagated-inputs | |
6452 | `(("r-ggplot2" ,r-ggplot2) | |
6453 | ("r-plyr" ,r-plyr) | |
6454 | ("r-rlang" ,r-rlang) | |
6455 | ("r-withr" ,r-withr))) | |
6456 | (home-page "https://cran.r-project.org/web/packages/ggstance/") | |
6457 | (synopsis "Horizontal and vertical versions of @code{r-ggplot2}") | |
6458 | (description | |
6459 | "This package is a @code{r-ggplot2} extension that provides flipped components: | |
6460 | @enumerate | |
6461 | @item horizontal versions of @code{r-ggplot2} stats and @code{r-ggplot2} geoms; | |
6462 | @item vertical versions of @code{r-ggplot2} positions. | |
6463 | @end enumerate") | |
6464 | (license license:gpl3))) | |
c61f7bc5 | 6465 | |
6466 | (define-public r-mosaiccore | |
6467 | (package | |
6468 | (name "r-mosaiccore") | |
6469 | (version "0.6.0") | |
6470 | (source | |
6471 | (origin | |
6472 | (method url-fetch) | |
6473 | (uri (cran-uri "mosaicCore" version)) | |
6474 | (sha256 | |
6475 | (base32 "1klw97h6lchw1cpcl8s637ikcl428cckmjq0czi7mibh9q9mw72z")))) | |
6476 | (properties `((upstream-name . "mosaicCore"))) | |
6477 | (build-system r-build-system) | |
6478 | (propagated-inputs | |
6479 | `(("r-dplyr" ,r-dplyr) | |
6480 | ("r-lazyeval" ,r-lazyeval) | |
6481 | ("r-mass" ,r-mass) | |
6482 | ("r-rlang" ,r-rlang) | |
6483 | ("r-tidyr" ,r-tidyr))) | |
6484 | (home-page "https://github.com/ProjectMOSAIC/mosaicCore/") | |
6485 | (synopsis "Common utilities for mosaic family packages") | |
6486 | (description | |
6487 | "Common utilities used in other Mosaic family packages are collected here.") | |
6488 | (license license:gpl2+))) | |
214452ff | 6489 | |
6490 | (define-public r-ggformula | |
6491 | (package | |
6492 | (name "r-ggformula") | |
104e7c3c | 6493 | (version "0.9.1") |
214452ff | 6494 | (source |
6495 | (origin | |
6496 | (method url-fetch) | |
6497 | (uri (cran-uri "ggformula" version)) | |
6498 | (sha256 | |
104e7c3c | 6499 | (base32 "01ngx8qh9lhmagng6abx2ky54zi3iyj5bpxlnw59slagwv7l6icx")))) |
214452ff | 6500 | (build-system r-build-system) |
6501 | (propagated-inputs | |
6502 | `(("r-ggplot2" ,r-ggplot2) | |
6503 | ("r-ggstance" ,r-ggstance) | |
6504 | ("r-magrittr" ,r-magrittr) | |
6505 | ("r-mosaiccore" ,r-mosaiccore) | |
6506 | ("r-rlang" ,r-rlang) | |
6507 | ("r-stringr" ,r-stringr) | |
6508 | ("r-tibble" ,r-tibble) | |
6509 | ("r-tidyr" ,r-tidyr))) | |
6510 | (home-page "https://github.com/ProjectMOSAIC/ggformula/") | |
6511 | (synopsis "Formula interface for the @code{r-ggplot2}") | |
6512 | (description | |
6513 | "The @code{r-ggformula} introduces a family of graphics functions, gf_point(), | |
6514 | gf_density(), and so on, bring the formula interface to ggplot(). This captures | |
6515 | and extends the excellent simplicity of the lattice-graphics formula interface, | |
6516 | while providing the intuitive capabilities of @code{r-ggplot2}.") | |
6517 | (license license:expat))) | |
2f195b6f | 6518 | |
6519 | (define-public r-mosaicdata | |
6520 | (package | |
6521 | (name "r-mosaicdata") | |
6522 | (version "0.17.0") | |
6523 | (source | |
6524 | (origin | |
6525 | (method url-fetch) | |
6526 | (uri (cran-uri "mosaicData" version)) | |
6527 | (sha256 | |
6528 | (base32 "04z0mdm52mykqsxsinhmsihn181zf6cw321gayk2rjp7lj7mwdq9")))) | |
6529 | (properties `((upstream-name . "mosaicData"))) | |
6530 | (build-system r-build-system) | |
6531 | (home-page "https://cran.r-project.org/web/packages/mosaicData/") | |
6532 | (synopsis "Data sets for project Mosaic") | |
6533 | (description | |
6534 | "This package provides data sets from project Mosaic @url{http://mosaic-web.org} | |
6535 | used to teach mathematics, statistics, computation and modeling.") | |
6536 | (license license:gpl2+))) | |
6c6ce2d0 | 6537 | |
82acd43c RW |
6538 | (define-public r-raster |
6539 | (package | |
6540 | (name "r-raster") | |
6541 | (version "2.8-4") | |
6542 | (source | |
6543 | (origin | |
6544 | (method url-fetch) | |
6545 | (uri (cran-uri "raster" version)) | |
6546 | (sha256 | |
6547 | (base32 | |
6548 | "14pcfznxm5kdwd908axkr9v1l0hzxlrwd8kwrz0liqnfh9cx5rsa")))) | |
6549 | (build-system r-build-system) | |
6550 | (propagated-inputs | |
6551 | `(("r-rcpp" ,r-rcpp) | |
6552 | ("r-sp" ,r-sp))) | |
6553 | (home-page "http://www.rspatial.org/") | |
6554 | (synopsis "Geographic data analysis and modeling") | |
6555 | (description | |
6556 | "The package implements basic and high-level functions for reading, | |
6557 | writing, manipulating, analyzing and modeling of gridded spatial data. | |
6558 | Processing of very large files is supported.") | |
6559 | (license license:gpl3+))) | |
6560 | ||
6c6ce2d0 | 6561 | (define-public r-mosaic |
6562 | (package | |
6563 | (name "r-mosaic") | |
6564 | (version "1.4.0") | |
6565 | (source | |
6566 | (origin | |
6567 | (method url-fetch) | |
6568 | (uri (cran-uri "mosaic" version)) | |
6569 | (sha256 | |
6570 | (base32 "10jbrg8kli00kfgbh2f67bymm5cnlancc9dplb1j7fl552yjddn2")))) | |
6571 | (build-system r-build-system) | |
6572 | (propagated-inputs | |
6573 | `(("r-broom" ,r-broom) | |
6574 | ("r-dplyr" ,r-dplyr) | |
6575 | ("r-ggdendro" ,r-ggdendro) | |
6576 | ("r-ggformula" ,r-ggformula) | |
6577 | ("r-ggplot2" ,r-ggplot2) | |
6578 | ("r-ggrepel" ,r-ggrepel) | |
6579 | ("r-glue" ,r-glue) | |
6580 | ("r-gridextra" ,r-gridextra) | |
6581 | ("r-lattice" ,r-lattice) | |
6582 | ("r-latticeextra" ,r-latticeextra) | |
6583 | ("r-lazyeval" ,r-lazyeval) | |
6584 | ("r-mass" ,r-mass) | |
6585 | ("r-matrix" ,r-matrix) | |
6586 | ("r-mosaiccore" ,r-mosaiccore) | |
6587 | ("r-mosaicdata" ,r-mosaicdata) | |
6588 | ("r-readr" ,r-readr) | |
6589 | ("r-tidyr" ,r-tidyr))) | |
6590 | (home-page "https://github.com/ProjectMOSAIC/mosaic/") | |
6591 | (synopsis "Mathematics, statistics, and computation teaching utilities") | |
6592 | (description | |
6593 | "This package contain data sets and utilities from | |
6594 | @url{http://mosaic-web.org, Project MOSAIC} used to teach mathematics, | |
6595 | statistics, computation and modeling. Project MOSAIC is a community of | |
6596 | educators working to tie together aspects of quantitative work that students | |
6597 | in science, technology, engineering and mathematics will need in their | |
6598 | professional lives, but which are usually taught in isolation, if at all.") | |
6599 | (license license:gpl2+))) | |
cbb0edd1 | 6600 | |
6601 | (define-public r-abd | |
6602 | (package | |
6603 | (name "r-abd") | |
6604 | (version "0.2-8") | |
6605 | (source | |
6606 | (origin | |
6607 | (method url-fetch) | |
6608 | (uri (cran-uri "abd" version)) | |
6609 | (sha256 | |
6610 | (base32 "191gspqzdv573vaw624ri0f5cm6v4j524bjs74d4a1hn3kn6r9b7")))) | |
6611 | (build-system r-build-system) | |
6612 | (propagated-inputs | |
6613 | `(("r-lattice" ,r-lattice) | |
6614 | ("r-mosaic" ,r-mosaic) | |
6615 | ("r-nlme" ,r-nlme))) | |
6616 | (home-page "https://cran.r-project.org/web/packages/abd/") | |
6617 | (synopsis "Analysis of biological data") | |
6618 | (description | |
6619 | "The @code{r-abd} package contains data sets and sample code for the Analysis of | |
6620 | biological data by Michael Whitlock and Dolph Schluter.") | |
6621 | (license license:gpl2))) | |
01af264d MIP |
6622 | |
6623 | (define-public r-svgui | |
6624 | (package | |
6625 | (name "r-svgui") | |
6626 | (version "1.0.0") | |
6627 | (source | |
6628 | (origin | |
6629 | (method url-fetch) | |
6630 | (uri (cran-uri "svGUI" version)) | |
6631 | (sha256 | |
6632 | (base32 "1r7ab0p4yr8q03gj02hmj7k1ghksgkg4nx750c0ajfs2q9y1dxfc")))) | |
6633 | (properties `((upstream-name . "svGUI"))) | |
6634 | (build-system r-build-system) | |
6635 | (home-page "https://github.com/SciViews/svGUI/") | |
6636 | (synopsis "Functions for managing GUI clients in R") | |
6637 | (description | |
6638 | "The SciViews @code{svGUI} package eases the management of Graphical User | |
6639 | Interfaces (GUI) in R. It is independent from any particular GUI widgets. It | |
6640 | centralizes info about GUI elements currently used, and it dispatches GUI | |
6641 | calls to the particular toolkits in use in function of the context.") | |
6642 | (license license:gpl2))) | |
d1ca3d72 | 6643 | |
6644 | (define-public r-svdialogs | |
6645 | (package | |
6646 | (name "r-svdialogs") | |
6647 | (version "1.0.0") | |
6648 | (source | |
6649 | (origin | |
6650 | (method url-fetch) | |
6651 | (uri (cran-uri "svDialogs" version)) | |
6652 | (sha256 | |
6653 | (base32 "0xqppydfawnwk84kb5qiybwbcmv38vn4imgz01mz2pnq4xb80p97")))) | |
6654 | (properties `((upstream-name . "svDialogs"))) | |
6655 | (build-system r-build-system) | |
6656 | (inputs | |
6657 | `(("yad" ,yad) | |
6658 | ("zenity" ,zenity))) | |
6659 | (propagated-inputs | |
6660 | `(("r-rstudioapi" ,r-rstudioapi) | |
6661 | ("r-svgui" ,r-svgui))) | |
6662 | (home-page "https://github.com/SciViews/svDialogs/") | |
6663 | (synopsis "Portable dialog boxes") | |
6664 | (description | |
6665 | "This package helps to construct standard dialog boxes for your GUI, including | |
6666 | message boxes, input boxes, list, file or directory selection, and others. In | |
6667 | case R cannot display GUI dialog boxes, a simpler command line version of these | |
6668 | interactive elements is also provided as a fallback solution.") | |
6669 | (license license:gpl2))) | |
3cadd3ce | 6670 | |
6671 | (define-public r-abe | |
6672 | (package | |
6673 | (name "r-abe") | |
6674 | (version "3.0.1") | |
6675 | (source | |
6676 | (origin | |
6677 | (method url-fetch) | |
6678 | (uri (cran-uri "abe" version)) | |
6679 | (sha256 | |
6680 | (base32 | |
6681 | "1f19h3xzzmjhvwc1rrb8z0rai3ip03y4gdi2gg9bfr5sg2nfklk6")))) | |
6682 | (build-system r-build-system) | |
6683 | (home-page "https://cran.r-project.org/web/packages/abe/") | |
6684 | (synopsis "Augmented backward elimination") | |
6685 | (description | |
6686 | "This package performs augmented backward elimination and checks the | |
6687 | stability of the obtained model. Augmented backward elimination combines | |
6688 | significance or information based criteria with the change in estimate to | |
6689 | either select the optimal model for prediction purposes or to serve as a tool | |
6690 | to obtain a practically sound, highly interpretable model.") | |
6691 | (license license:gpl2+))) | |
ef26400b | 6692 | |
6693 | (define-public r-abf2 | |
6694 | (package | |
6695 | (name "r-abf2") | |
6696 | (version "0.7-1") | |
6697 | (source | |
6698 | (origin | |
6699 | (method url-fetch) | |
6700 | (uri (cran-uri "abf2" version)) | |
6701 | (sha256 | |
6702 | (base32 "0d65mc1w4pbiv7xaqzdlw1bfsxf25587rv597hh41vs0j0zlfpxx")))) | |
6703 | (build-system r-build-system) | |
6704 | (home-page "https://cran.r-project.org/web/packages/abf2/") | |
6705 | (synopsis "Load gap-free axon @code{r-abf2} files") | |
6706 | (description | |
6707 | "This package loads electrophysiology data from ABF2 files, as created by | |
6708 | Axon Instruments/Molecular Devices software. Only files recorded in gap-free | |
6709 | mode are currently supported.") | |
6710 | (license license:artistic2.0))) | |
1efcd0f1 | 6711 | |
6712 | (define-public r-abhgenotyper | |
6713 | (package | |
6714 | (name "r-abhgenotyper") | |
6715 | (version "1.0.1") | |
6716 | (source | |
6717 | (origin | |
6718 | (method url-fetch) | |
6719 | (uri (cran-uri "ABHgenotypeR" version)) | |
6720 | (sha256 | |
6721 | (base32 "08cpmnaaxsm5c5bjifnfxdlvg5inrf13biqpcl2yq5zpqjmiki0l")))) | |
6722 | (properties `((upstream-name . "ABHgenotypeR"))) | |
6723 | (build-system r-build-system) | |
6724 | (propagated-inputs | |
6725 | `(("r-ggplot2" ,r-ggplot2) | |
6726 | ("r-reshape2" ,r-reshape2))) | |
6727 | (home-page "https://github.com/StefanReuscher/ABHgenotypeR/") | |
6728 | (synopsis "Visualize and manipulate ABH genotypes") | |
6729 | (description | |
6730 | "The @code{r-abhgenotyper} package provides simple imputation, | |
6731 | error-correction and plotting capacities for genotype data. The package is | |
6732 | supposed to serve as an intermediate but independent analysis tool between the | |
6733 | TASSEL GBS pipeline and the @code{r-qtl} package. It provides functionalities | |
6734 | not found in either TASSEL or @code{r-qtl} in addition to visualization of | |
6735 | genotypes as \"graphical genotypes\".") | |
6736 | (license license:gpl3))) | |
ebb3cdb1 | 6737 | |
6738 | (define-public r-abjutils | |
6739 | (package | |
6740 | (name "r-abjutils") | |
6741 | (version "0.2.1") | |
6742 | (source | |
6743 | (origin | |
6744 | (method url-fetch) | |
6745 | (uri (cran-uri "abjutils" version)) | |
6746 | (sha256 | |
6747 | (base32 "0qrsc4if7aif73qp95lw6b5986c2r0jn7m39123zij8k15vc935b")))) | |
6748 | (build-system r-build-system) | |
6749 | (propagated-inputs | |
6750 | `(("r-devtools" ,r-devtools) | |
6751 | ("r-dplyr" ,r-dplyr) | |
6752 | ("r-glue" ,r-glue) | |
6753 | ("r-httr" ,r-httr) | |
6754 | ("r-magrittr" ,r-magrittr) | |
6755 | ("r-plyr" ,r-plyr) | |
6756 | ("r-progress" ,r-progress) | |
6757 | ("r-purrr" ,r-purrr) | |
6758 | ("r-rstudioapi" ,r-rstudioapi) | |
6759 | ("r-scales" ,r-scales) | |
6760 | ("r-stringi" ,r-stringi) | |
6761 | ("r-stringr" ,r-stringr) | |
6762 | ("r-tibble" ,r-tibble) | |
6763 | ("r-tidyr" ,r-tidyr))) | |
6764 | (home-page "https://github.com/abjur/abjutils/") | |
6765 | (synopsis "Collection of tools for jurimetrical analysis") | |
6766 | (description | |
6767 | "This package implements general purpose tools, such as functions for | |
6768 | sampling and basic manipulation of Brazilian lawsuits identification number. | |
6769 | It also implements functions for text cleaning, such as accentuation | |
6770 | removal.") | |
6771 | (license license:expat))) | |
b6afe7b7 | 6772 | |
6773 | (define-public r-abnormality | |
6774 | (package | |
6775 | (name "r-abnormality") | |
6776 | (version "0.1.0") | |
6777 | (source | |
6778 | (origin | |
6779 | (method url-fetch) | |
6780 | (uri (cran-uri "abnormality" version)) | |
6781 | (sha256 | |
6782 | (base32 "1fzfskl9akl06nliy8hkv2a0pznpj8pwcypg3gj5r2nzvr3kan9v")))) | |
6783 | (build-system r-build-system) | |
6784 | (propagated-inputs | |
6785 | `(("r-mass" ,r-mass) | |
6786 | ("r-matrix" ,r-matrix))) | |
6787 | (home-page "https://cran.r-project.org/web/packages/abnormality/") | |
6788 | (synopsis "Measure a subject's abnormality with respect to a reference population") | |
6789 | (description | |
6790 | "This package contains functions to implement the methodology and | |
6791 | considerations laid out by Marks et al. in the article \"Measuring abnormality | |
6792 | in high dimensional spaces: applications in biomechanical gait analysis\". | |
6793 | Using high-dimensional datasets to measure a subject's overall level of | |
6794 | abnormality as compared to a reference population is often needed in outcomes | |
6795 | research.") | |
6796 | (license license:expat))) | |
016cabf7 | 6797 | |
6798 | (define-public r-abodoutlier | |
6799 | (package | |
6800 | (name "r-abodoutlier") | |
6801 | (version "0.1") | |
6802 | (source | |
6803 | (origin | |
6804 | (method url-fetch) | |
6805 | (uri (cran-uri "abodOutlier" version)) | |
6806 | (sha256 | |
6807 | (base32 "1pvhgxmh23br84r0fbmv7g53z2427birdja96a67vqgz18r3fdvj")))) | |
6808 | (properties `((upstream-name . "abodOutlier"))) | |
6809 | (build-system r-build-system) | |
6810 | (propagated-inputs | |
6811 | `(("r-cluster" ,r-cluster))) | |
6812 | (home-page "https://cran.r-project.org/web/packages/abodOutlier/") | |
6813 | (synopsis "Angle-based outlier detection") | |
6814 | (description | |
6815 | "This package performs angle-based outlier detection on a given data | |
6816 | frame. It offers three methods to process data: | |
6817 | @enumerate | |
6818 | @item full but slow implementation using all the data that has cubic | |
6819 | complexity; | |
6820 | @item a fully randomized method; | |
6821 | @item a method using k-nearest neighbours. | |
6822 | @end enumerate | |
6823 | These algorithms are well suited for high dimensional data outlier | |
6824 | detection.") | |
6825 | (license license:expat))) | |
03c95f04 | 6826 | |
6827 | (define-public r-abps | |
6828 | (package | |
6829 | (name "r-abps") | |
bec74196 | 6830 | (version "0.3") |
03c95f04 | 6831 | (source |
6832 | (origin | |
6833 | (method url-fetch) | |
6834 | (uri (cran-uri "ABPS" version)) | |
6835 | (sha256 | |
bec74196 | 6836 | (base32 "0n3f66nmfi5v94il1mxy026mi84w01ph2aljk60vn3mrz8kwf2ll")))) |
03c95f04 | 6837 | (properties `((upstream-name . "ABPS"))) |
6838 | (build-system r-build-system) | |
6839 | (propagated-inputs `(("r-kernlab" ,r-kernlab))) | |
6840 | (home-page "https://cran.r-project.org/web/packages/ABPS/") | |
6841 | (synopsis "Abnormal blood profile score to detect blood doping") | |
6842 | (description | |
6843 | "This package offers an implementation of the @dfn{Abnormal blood profile score} (ABPS). | |
6844 | The ABPS is a part of the Athlete biological passport program of the World | |
6845 | anti-doping agency, which combines several blood parameters into a single | |
6846 | score in order to detect blood doping. The package also contains functions to | |
6847 | calculate other scores used in anti-doping programs, such as the ratio of | |
6848 | hemoglobin to reticulocytes (OFF-score), as well as example data.") | |
6849 | (license license:gpl2+))) | |
26358ac5 RW |
6850 | |
6851 | (define-public r-parmigene | |
6852 | (package | |
6853 | (name "r-parmigene") | |
6854 | (version "1.0.2") | |
6855 | (source | |
6856 | (origin | |
6857 | (method url-fetch) | |
6858 | (uri (cran-uri "parmigene" version)) | |
6859 | (sha256 | |
6860 | (base32 | |
6861 | "1fsm6pkr17jcbzkj1hbn91jf890fviqk1lq6ls8pihsdgah1zb4d")))) | |
6862 | (build-system r-build-system) | |
6863 | (home-page "https://cran.r-project.org/web/packages/parmigene/") | |
6864 | (synopsis "Mutual information estimation for gene network reconstruction") | |
6865 | (description | |
6866 | "This package provides a parallel estimation of the mutual information | |
6867 | based on entropy estimates from k-nearest neighbors distances and algorithms | |
6868 | for the reconstruction of gene regulatory networks.") | |
6869 | (license license:agpl3+))) | |
b2bf43b2 | 6870 | |
6871 | (define-public r-pscl | |
6872 | (package | |
6873 | (name "r-pscl") | |
6874 | (version "1.5.2") | |
6875 | (source | |
6876 | (origin | |
6877 | (method url-fetch) | |
6878 | (uri (cran-uri "pscl" version)) | |
6879 | (sha256 | |
6880 | (base32 "1phf3awsfr4ncqfqzin5m1pz0g7y1zhbcm2sz7358ssw914fd7rc")))) | |
6881 | (build-system r-build-system) | |
6882 | (propagated-inputs | |
6883 | `(("r-mass" ,r-mass))) | |
6884 | (home-page "https://github.com/atahk/pscl/") | |
6885 | (synopsis "Political science computational laboratory") | |
6886 | (description | |
6887 | "The @code{pscl} is an R package providing classes and methods for: | |
6888 | @enumerate | |
6889 | @item Bayesian analysis of roll call data (item-response models); | |
6890 | @item elementary Bayesian statistics; | |
6891 | @item maximum likelihood estimation of zero-inflated and hurdle models for count | |
6892 | data; | |
6893 | @item utility functions. | |
6894 | @end enumerate") | |
6895 | (license license:gpl2))) | |
e710d1a4 | 6896 | |
6897 | (define-public r-accelmissing | |
6898 | (package | |
6899 | (name "r-accelmissing") | |
6900 | (version "1.4") | |
6901 | (source | |
6902 | (origin | |
6903 | (method url-fetch) | |
6904 | (uri (cran-uri "accelmissing" version)) | |
6905 | (sha256 | |
6906 | (base32 "1nql9inx6azdzi3z4sfm2vdml2mms6krl8wzlf1dn1c97ahn57fy")))) | |
6907 | (build-system r-build-system) | |
6908 | (propagated-inputs | |
6909 | `(("r-mice" ,r-mice) | |
6910 | ("r-pscl" ,r-pscl))) | |
6911 | (home-page "https://cran.r-project.org/web/packages/accelmissing/") | |
6912 | (synopsis "Missing value imputation for accelerometer data") | |
6913 | (description | |
6914 | "This package provides a statistical method to impute the missing values in | |
6915 | accelerometer data. The methodology includes both parametric and | |
6916 | semi-parametric multiple imputations under the zero-inflated Poisson lognormal | |
6917 | model. It also provides multiple functions to preprocess the accelerometer data | |
6918 | previous to the missing data imputation. These include detecting the wearing | |
6919 | and the non-wearing time, selecting valid days and subjects, and creating plots.") | |
6920 | (license license:gpl2+))) | |
f359b115 | 6921 | |
6922 | (define-public r-mhsmm | |
6923 | (package | |
6924 | (name "r-mhsmm") | |
6925 | (version "0.4.16") | |
6926 | (source | |
6927 | (origin | |
6928 | (method url-fetch) | |
6929 | (uri (cran-uri "mhsmm" version)) | |
6930 | (sha256 | |
6931 | (base32 "009dj0zkj1zry7jr9hf4cknb686z50a2l967if64xm0dvjmp7dgs")))) | |
6932 | (build-system r-build-system) | |
6933 | (propagated-inputs `(("r-mvtnorm" ,r-mvtnorm))) | |
6934 | (home-page "https://github.com/jaredo/mhsmm/") | |
6935 | (synopsis "Inference for hidden Markov and semi-Markov models") | |
6936 | (description | |
6937 | "The @code{r-mhsmm} package implements estimation and prediction methods for | |
6938 | hidden Markov and semi-Markov models for multiple observation sequences. Such | |
6939 | techniques are of interest when observed data is thought to be dependent on some | |
6940 | unobserved (or hidden) state. Also, this package is suitable for equidistant | |
6941 | time series data, with multivariate and/or missing data. Allows user defined | |
6942 | emission distributions.") | |
6943 | (license license:gpl2+))) | |
16c5285a | 6944 | |
6945 | (define-public r-nleqslv | |
6946 | (package | |
6947 | (name "r-nleqslv") | |
6948 | (version "3.3.2") | |
6949 | (source | |
6950 | (origin | |
6951 | (method url-fetch) | |
6952 | (uri (cran-uri "nleqslv" version)) | |
6953 | (sha256 | |
6954 | (base32 "1v9znvncyigw9r25wx2ma0b7ib179b488dl0qsrhp5zrcz7mcjgm")))) | |
6955 | (build-system r-build-system) | |
6956 | (native-inputs `(("gfortran" ,gfortran))) | |
6957 | (home-page "https://cran.r-project.org/web/packages/nleqslv/") | |
6958 | (synopsis "Solve systems of nonlinear equations") | |
6959 | (description | |
6960 | "The @code{r-nleqslv} package solves a system of nonlinear equations using a | |
6961 | Broyden or a Newton method with a choice of global strategies such as line | |
6962 | search and trust region. There are options for using a numerical or user | |
6963 | supplied Jacobian, for specifying a banded numerical Jacobian and for allowing a | |
6964 | singular or ill-conditioned Jacobian.") | |
6965 | (license license:gpl2+))) | |
63ec2c50 | 6966 | |
6967 | (define-public r-physicalactivity | |
6968 | (package | |
6969 | (name "r-physicalactivity") | |
6970 | (version "0.2-2") | |
6971 | (source | |
6972 | (origin | |
6973 | (method url-fetch) | |
6974 | (uri (cran-uri "PhysicalActivity" version)) | |
6975 | (sha256 | |
6976 | (base32 "14z6plgwyr46vs9m997rvlz8sdglfs9g087an8668zqkzzs2w4ln")))) | |
6977 | (properties | |
6978 | `((upstream-name . "PhysicalActivity"))) | |
6979 | (build-system r-build-system) | |
6980 | (home-page "https://cran.r-project.org/web/packages/PhysicalActivity/") | |
6981 | (synopsis "Procesing accelerometer data for physical activity measurement") | |
6982 | (description | |
6983 | "This @code{r-physicalactivity} package provides a function @code{wearingMarking} | |
6984 | for classification of monitor wear and nonwear time intervals in accelerometer | |
6985 | data collected to assess physical activity. The package also contains functions | |
6986 | for making plots of accelerometer data and obtaining the summary of various | |
6987 | information including daily monitor wear time and the mean monitor wear time | |
6988 | during valid days. The revised package version 0.2-1 improved the functions | |
6989 | regarding speed, robustness and add better support for time zones and daylight | |
6990 | saving. In addition, several functions were added: | |
6991 | @enumerate | |
6992 | @item the @code{markDelivery} can classify days for ActiGraph delivery by mail; | |
6993 | @item the @code{markPAI} can categorize physical activity intensity level based | |
6994 | on user-defined cut-points of accelerometer counts. | |
6995 | @end enumerate | |
6996 | It also supports importing ActiGraph (AGD) files with @code{readActigraph} and | |
6997 | @code{queryActigraph} functions.") | |
6998 | (license license:gpl3+))) | |
f95d4542 | 6999 | |
7000 | (define-public r-acc | |
7001 | (package | |
7002 | (name "r-acc") | |
7003 | (version "1.3.3") | |
7004 | (source | |
7005 | (origin | |
7006 | (method url-fetch) | |
7007 | (uri (cran-uri "acc" version)) | |
7008 | (sha256 | |
7009 | (base32 "1ii2vm47djxbixa75h690q1s2f9m9x6i8nkygik93j6dayr6kr1m")))) | |
7010 | (build-system r-build-system) | |
7011 | (propagated-inputs | |
7012 | `(("r-circlize" ,r-circlize) | |
7013 | ("r-dbi" ,r-dbi) | |
7014 | ("r-ggplot2" ,r-ggplot2) | |
7015 | ("r-iterators" ,r-iterators) | |
7016 | ("r-mhsmm" ,r-mhsmm) | |
7017 | ("r-nleqslv" ,r-nleqslv) | |
7018 | ("r-physicalactivity" ,r-physicalactivity) | |
7019 | ("r-plyr" ,r-plyr) | |
7020 | ("r-r-utils" ,r-r-utils) | |
7021 | ("r-rcpp" ,r-rcpp) | |
7022 | ("r-rcpparmadillo" ,r-rcpparmadillo) | |
7023 | ("r-rsqlite" ,r-rsqlite) | |
7024 | ("r-zoo" ,r-zoo))) | |
7025 | (home-page "https://cran.r-project.org/web/packages/acc/") | |
7026 | (synopsis "Exploring accelerometer data") | |
7027 | (description | |
7028 | "This package processes accelerometer data from uni-axial and tri-axial devices | |
7029 | and generates data summaries. Also, includes functions to plot, analyze, and | |
7030 | simulate accelerometer data.") | |
7031 | (license license:gpl2+))) | |
f6890c08 | 7032 | |
7033 | (define-public r-rbenchmark | |
7034 | (package | |
7035 | (name "r-rbenchmark") | |
7036 | (version "1.0.0") | |
7037 | (source | |
7038 | (origin | |
7039 | (method url-fetch) | |
7040 | (uri (cran-uri "rbenchmark" version)) | |
7041 | (sha256 | |
7042 | (base32 "010fn3qwnk2k411cbqyvra1d12c3bhhl3spzm8kxffmirj4p2al9")))) | |
7043 | (build-system r-build-system) | |
7044 | (home-page "https://cran.r-project.org/web/packages/rbenchmark/") | |
7045 | (synopsis "Benchmarking routine for R") | |
7046 | (description | |
7047 | "This @code{r-rbenchmark} package is inspired by the Perl module Benchmark, | |
7048 | and is intended to facilitate benchmarking of arbitrary R code. The library | |
7049 | consists of just one function, benchmark, which is a simple wrapper around | |
7050 | system.time. Given a specification of the benchmarking process (counts of | |
7051 | replications, evaluation environment) and an arbitrary number of expressions, | |
7052 | benchmark evaluates each of the expressions in the specified environment, | |
7053 | replicating the evaluation as many times as specified, and returning the results | |
7054 | conveniently wrapped into a data frame.") | |
7055 | (license license:gpl2+))) | |
7056 | ||
7af2dd38 | 7057 | (define-public r-dvmisc |
7058 | (package | |
7059 | (name "r-dvmisc") | |
7060 | (version "1.1.2") | |
7061 | (source | |
7062 | (origin | |
7063 | (method url-fetch) | |
7064 | (uri (cran-uri "dvmisc" version)) | |
7065 | (sha256 | |
7066 | (base32 "1dy0yykskwhkql19bhzmbwsgv028afc8jh9yqwbczj6f3vpv31zh")))) | |
7067 | (build-system r-build-system) | |
7068 | (propagated-inputs | |
7069 | `(("r-mass" ,r-mass) | |
7070 | ("r-rbenchmark" ,r-rbenchmark) | |
7071 | ("r-rcpp" ,r-rcpp))) | |
7072 | (home-page "https://cran.r-project.org/web/packages/dvmisc/") | |
7073 | (synopsis "Faster computation of common statistics and miscellaneous functions") | |
7074 | (description | |
7075 | "This package implements faster versions of base R functions (e.g. mean, standard | |
7076 | deviation, covariance, weighted mean), mostly written in C++, along with | |
7077 | miscellaneous functions for various purposes (e.g. create the histogram with | |
7078 | fitted probability density function or probability mass function curve, create | |
7079 | the body mass index groups, assess the linearity assumption in logistic | |
7080 | regression).") | |
7081 | (license license:gpl2))) | |
d8d8844e | 7082 | |
7083 | (define-public r-accelerometry | |
7084 | (package | |
7085 | (name "r-accelerometry") | |
7086 | (version "3.1.2") | |
7087 | (source | |
7088 | (origin | |
7089 | (method url-fetch) | |
7090 | (uri (cran-uri "accelerometry" version)) | |
7091 | (sha256 | |
7092 | (base32 "13xzrwhr4i1nj9c8vrmfdg2rmrc8n446iihcyxmy99sm99hpzyip")))) | |
7093 | (build-system r-build-system) | |
7094 | (propagated-inputs | |
7095 | `(("r-dvmisc" ,r-dvmisc) | |
7096 | ("r-rcpp" ,r-rcpp))) | |
7097 | (home-page "https://cran.r-project.org/web/packages/accelerometry/") | |
7098 | (synopsis "Functions for processing accelerometer data") | |
7099 | (description | |
7100 | "This package provides a collection of functions that perform operations on | |
7101 | time-series accelerometer data, such as identify the non-wear time, flag minutes | |
7102 | that are part of an activity bout, and find the maximum 10-minute average count | |
7103 | value. The functions are generally very flexible, allowing for a variety of | |
7104 | algorithms to be implemented.") | |
7105 | (license license:gpl3))) | |
1ddb2b5c | 7106 | |
7107 | (define-public r-absim | |
7108 | (package | |
7109 | (name "r-absim") | |
7110 | (version "0.2.6") | |
7111 | (source | |
7112 | (origin | |
7113 | (method url-fetch) | |
7114 | (uri (cran-uri "AbSim" version)) | |
7115 | (sha256 | |
7116 | (base32 "16ddjk8b6xw80ch4jis1y751i9561wdxh0gifbf15qiz3vjckq8m")))) | |
7117 | (properties `((upstream-name . "AbSim"))) | |
7118 | (build-system r-build-system) | |
7119 | (propagated-inputs | |
7120 | `(("r-ape" ,r-ape) | |
7121 | ("r-powerlaw" ,r-powerlaw))) | |
7122 | (home-page "https://cran.r-project.org/web/packages/AbSim/") | |
7123 | (synopsis "Time resolved simulations of antibody repertoires") | |
7124 | (description | |
7125 | "This package provides simulation methods for the evolution of antibody repertoires. | |
7126 | The heavy and light chain variable region of both human and C57BL/6 mice can | |
7127 | be simulated in a time-dependent fashion. Both single lineages using one set of | |
7128 | V-, D-, and J-genes or full repertoires can be simulated. The algorithm begins | |
7129 | with an initial V-D-J recombination event, starting the first phylogenetic tree. | |
7130 | Upon completion, the main loop of the algorithm begins, with each iteration | |
7131 | representing one simulated time step. Various mutation events are possible at | |
7132 | each time step, contributing to a diverse final repertoire.") | |
7133 | (license license:gpl2))) | |
c2ffc4fb | 7134 | |
b5a31005 MIP |
7135 | (define-public r-quic |
7136 | (package | |
7137 | (name "r-quic") | |
7138 | (version "1.1") | |
7139 | (source | |
7140 | (origin | |
7141 | (method url-fetch) | |
7142 | (uri (cran-uri "QUIC" version)) | |
7143 | (sha256 | |
7144 | (base32 "021bp9xbaih60qmss015ycblbv6d1dvb1z89y93zpqqnc2qhpv3c")))) | |
7145 | (properties `((upstream-name . "QUIC"))) | |
7146 | (build-system r-build-system) | |
7147 | (home-page "https://www.cs.utexas.edu/users/sustik/QUIC/") | |
7148 | (synopsis "Regularized sparse inverse covariance matrix estimation") | |
7149 | (description | |
7150 | "This package implements the regularized Gaussian maximum likelihood | |
7151 | estimation of the inverse of a covariance matrix. It uses Newton's method and | |
7152 | coordinate descent to solve the regularized inverse covariance matrix | |
7153 | estimation problem.") | |
7154 | ;; The project home page states that the release is under GPLv3 or later. | |
7155 | ;; The CRAN page only says GPL-3. | |
7156 | (license license:gpl3+))) | |
7157 | ||
b509df82 MIP |
7158 | (define-public r-abundant |
7159 | (package | |
7160 | (name "r-abundant") | |
7161 | (version "1.1") | |
7162 | (source | |
7163 | (origin | |
7164 | (method url-fetch) | |
7165 | (uri (cran-uri "abundant" version)) | |
7166 | (sha256 | |
7167 | (base32 "1m76qdmqvwpgm0sihazi2dna7cgsz9rljal18vgffb5wamwmg9k7")))) | |
7168 | (build-system r-build-system) | |
7169 | (propagated-inputs | |
7170 | `(("r-quic" ,r-quic))) | |
7171 | (home-page "https://cran.r-project.org/web/packages/abundant/") | |
7172 | (synopsis "Abundant regression and high-dimensional principal fitted components") | |
7173 | (description | |
7174 | "This package provides tools to fit and predict with the high-dimensional | |
7175 | principal fitted components model. This model is described by Cook, Forzani, | |
7176 | and Rothman (2012) @url{doi:10.1214/11-AOS962}.") | |
7177 | ;; The DESCRIPTION file states GPL-2, but since it directly depends on a | |
7178 | ;; GPLv3+ package (QUIC) this likely means GPLv2+. | |
7179 | (license license:gpl2+))) | |
7180 | ||
c2ffc4fb | 7181 | (define-public r-ac3net |
7182 | (package | |
7183 | (name "r-ac3net") | |
7184 | (version "1.2.2") | |
7185 | (source | |
7186 | (origin | |
7187 | (method url-fetch) | |
7188 | (uri (cran-uri "Ac3net" version)) | |
7189 | (sha256 | |
7190 | (base32 "1ns4n0xxz6p34c11bj0k7nzgmyqr9mis2b0g5nfz37dbikndyqyz")))) | |
7191 | (properties `((upstream-name . "Ac3net"))) | |
7192 | (build-system r-build-system) | |
7193 | (propagated-inputs | |
7194 | `(("r-data-table" ,r-data-table))) | |
7195 | (home-page "https://cran.r-project.org/web/packages/Ac3net/") | |
7196 | (synopsis "Inferring directional conservative causal core gene networks") | |
7197 | (description "This package infers directional Conservative causal core | |
7198 | (gene) networks (C3NET). This is a version of the algorithm C3NET with | |
7199 | directional network.") | |
7200 | (license license:gpl3+))) | |
da333859 | 7201 | |
7202 | (define-public r-aca | |
7203 | (package | |
7204 | (name "r-aca") | |
7205 | (version "1.1") | |
7206 | (source | |
7207 | (origin | |
7208 | (method url-fetch) | |
7209 | (uri (cran-uri "ACA" version)) | |
7210 | (sha256 | |
7211 | (base32 "1i3hm27nvnkvc39xlh0d1blq8q0q02czmvgi3cazmjx3jvxay0vq")))) | |
7212 | (properties `((upstream-name . "ACA"))) | |
7213 | (build-system r-build-system) | |
7214 | (home-page "https://cran.r-project.org/web/packages/ACA/") | |
7215 | (synopsis "Abrupt change-point or aberration detection in point series") | |
7216 | (description | |
7217 | "This package offers an interactive function for the detection of breakpoints in | |
7218 | series.") | |
7219 | ;; Any version of the GPL | |
7220 | (license (list license:gpl2+ license:gpl3+)))) | |
9c1c2108 | 7221 | |
7222 | (define-public r-acceptancesampling | |
7223 | (package | |
7224 | (name "r-acceptancesampling") | |
7225 | (version "1.0-5") | |
7226 | (source | |
7227 | (origin | |
7228 | (method url-fetch) | |
7229 | (uri (cran-uri "AcceptanceSampling" version)) | |
7230 | (sha256 | |
7231 | (base32 "18krmmyn8pn11aqd81kbvka68lnd36mnpdh7p3pz9r4m4vjj007x")))) | |
7232 | (properties | |
7233 | `((upstream-name . "AcceptanceSampling"))) | |
7234 | (build-system r-build-system) | |
7235 | (home-page "https://cran.r-project.org/web/packages/AcceptanceSampling/") | |
7236 | (synopsis "Creation and evaluation of acceptance sampling plans") | |
7237 | (description | |
7238 | "This @code{r-acceptancesampling} provides functionality for creating and evaluating | |
7239 | acceptance sampling plans. Acceptance sampling is a methodology commonly used | |
7240 | in quality control and improvement. International standards of acceptance | |
7241 | sampling provide sampling plans for specific circumstances. The aim of this | |
7242 | package is to provide an easy-to-use interface to visualize single, double or | |
7243 | multiple sampling plans. In addition, methods have been provided to enable the | |
7244 | user to assess sampling plans against pre-specified levels of performance, as | |
7245 | measured by the probability of acceptance for a given level of quality in the | |
7246 | lot.") | |
7247 | (license license:gpl3+))) | |
7248 | ||
63781c57 LF |
7249 | (define-public r-acclma |
7250 | (package | |
7251 | (name "r-acclma") | |
7252 | (version "1.0") | |
7253 | (source | |
7254 | (origin | |
7255 | (method url-fetch) | |
7256 | (uri (cran-uri "ACCLMA" version)) | |
7257 | (sha256 | |
7258 | (base32 "1na27sp18fq12gp6vxgqw1ffsz2yi1d8xvrxbrzx5g1kqxrayy0v")))) | |
7259 | (properties `((upstream-name . "ACCLMA"))) | |
7260 | (build-system r-build-system) | |
7261 | (home-page "https://cran.r-project.org/web/packages/ACCLMA/") | |
7262 | (synopsis "ACC & LMA graph plotting") | |
7263 | (description | |
666fb288 LC |
7264 | "This package contains a function that imports data from a @acronym{CSV, |
7265 | Comma-Separated Values} file, or uses manually entered data from the format (x, | |
7266 | y, weight) and plots the appropriate @acronym{ACC, Absolute Concentration | |
7267 | Curve} vs @acronym{LOI, Line of Independence} graph and | |
7268 | @acronym{LMA, @acronym{LOI} Minus @acronym{ACC}} graph. The main | |
7269 | function is @code{plotLMA} (source file, header) that takes a data set and plots the | |
63781c57 LF |
7270 | appropriate @acronym{LMA} and @acronym{ACC} graphs. If no source file (a |
7271 | string) was passed, a manual data entry window is opened. The header parameter | |
7272 | indicates by TRUE/FALSE (false by default) if the source @acronym{CSV} file has | |
7273 | a header row or not. The dataset should contain only one independent variable | |
7274 | (x) and one dependent variable (y) and can contain a weight for each | |
7275 | observation.") | |
7276 | (license license:gpl2))) | |
b55697fb LL |
7277 | |
7278 | (define-public r-aspi | |
7279 | (package | |
7280 | (name "r-aspi") | |
7281 | (version "0.2.0") | |
7282 | (source | |
7283 | (origin | |
7284 | (method url-fetch) | |
7285 | (uri (cran-uri "aspi" version)) | |
7286 | (sha256 | |
7287 | (base32 "0rhvxw243vvdv3hxa6pi343gcjc2cbxq1jzqirl9k1l4i3897l87")))) | |
7288 | (build-system r-build-system) | |
7289 | (home-page | |
7290 | "https://cran.r-project.org/web/packages/aspi/") | |
7291 | (synopsis | |
7292 | "Analysis of symmetry of parasitic infections") | |
7293 | (description | |
7294 | "This package provides tools for the analysis and visualization of bilateral | |
7295 | asymmetry in parasitic infections.") | |
7296 | (license license:gpl3+))) | |
302db585 RW |
7297 | |
7298 | (define-public r-sandwich | |
7299 | (package | |
7300 | (name "r-sandwich") | |
7301 | (version "2.5-0") | |
7302 | (source | |
7303 | (origin | |
7304 | (method url-fetch) | |
7305 | (uri (cran-uri "sandwich" version)) | |
7306 | (sha256 | |
7307 | (base32 | |
7308 | "168kq5kk34xbhfsxsanard9zriyp6cw0s09ralzb57kk42pl9hbc")))) | |
7309 | (build-system r-build-system) | |
7310 | (propagated-inputs | |
7311 | `(("r-zoo" ,r-zoo))) | |
7312 | (home-page "https://cran.r-project.org/web/packages/sandwich/") | |
7313 | (synopsis "Robust Covariance Matrix Estimators") | |
7314 | (description | |
7315 | "This package provides model-robust standard error estimators for | |
7316 | cross-sectional, time series, clustered, panel, and longitudinal data.") | |
7317 | ;; Either version of the license. | |
7318 | (license (list license:gpl2 license:gpl3)))) | |
6ce07cf9 RW |
7319 | |
7320 | (define-public r-th-data | |
7321 | (package | |
7322 | (name "r-th-data") | |
7323 | (version "1.0-9") | |
7324 | (source | |
7325 | (origin | |
7326 | (method url-fetch) | |
7327 | (uri (cran-uri "TH.data" version)) | |
7328 | (sha256 | |
7329 | (base32 | |
7330 | "03xfvww0krw0fn76qmmvrj7dx4shin57qafwhkrggfg25hbqlcfq")))) | |
7331 | (properties `((upstream-name . "TH.data"))) | |
7332 | (build-system r-build-system) | |
7333 | (propagated-inputs | |
7334 | `(("r-mass" ,r-mass) | |
7335 | ("r-survival" ,r-survival))) | |
7336 | (home-page "https://cran.r-project.org/web/packages/TH.data/") | |
7337 | (synopsis "Shared data sets") | |
7338 | (description | |
7339 | "This package contains supporting data sets that are used in other | |
7340 | packages maintained by Torsten Hothorn.") | |
7341 | (license license:gpl3))) | |
7753b543 RW |
7342 | |
7343 | (define-public r-multcomp | |
7344 | (package | |
7345 | (name "r-multcomp") | |
7346 | (version "1.4-8") | |
7347 | (source | |
7348 | (origin | |
7349 | (method url-fetch) | |
7350 | (uri (cran-uri "multcomp" version)) | |
7351 | (sha256 | |
7352 | (base32 | |
7353 | "0fm78g4zjc6ank316qfw977864shmy890znn4fahwc8jjdhpc252")))) | |
7354 | (build-system r-build-system) | |
7355 | (propagated-inputs | |
7356 | `(("r-codetools" ,r-codetools) | |
7357 | ("r-mvtnorm" ,r-mvtnorm) | |
7358 | ("r-sandwich" ,r-sandwich) | |
7359 | ("r-survival" ,r-survival) | |
7360 | ("r-th-data" ,r-th-data))) | |
7361 | (home-page "https://cran.r-project.org/web/packages/multcomp/") | |
7362 | (synopsis "Simultaneous inference in general parametric models") | |
7363 | (description | |
7364 | "Simultaneous tests and confidence intervals for general linear | |
7365 | hypotheses in parametric models, including linear, generalized linear, linear | |
7366 | mixed effects, and survival models. The package includes demos reproducing | |
7367 | analyzes presented in the book \"Multiple Comparisons Using R\" (Bretz, | |
7368 | Hothorn, Westfall, 2010, CRC Press).") | |
7369 | (license license:gpl2))) | |
55a08dce RW |
7370 | |
7371 | (define-public r-emmeans | |
7372 | (package | |
7373 | (name "r-emmeans") | |
9df469a1 | 7374 | (version "1.3.1") |
55a08dce RW |
7375 | (source |
7376 | (origin | |
7377 | (method url-fetch) | |
7378 | (uri (cran-uri "emmeans" version)) | |
7379 | (sha256 | |
7380 | (base32 | |
9df469a1 | 7381 | "1sf7gmdb7aqhdpx489vg693ivc5677n4yjx27ixv8v7pjh8mlwwx")))) |
55a08dce RW |
7382 | (build-system r-build-system) |
7383 | (propagated-inputs | |
7384 | `(("r-estimability" ,r-estimability) | |
7385 | ("r-mvtnorm" ,r-mvtnorm) | |
7386 | ("r-plyr" ,r-plyr) | |
7387 | ("r-xtable" ,r-xtable))) | |
7388 | (home-page "https://github.com/rvlenth/emmeans") | |
7389 | (synopsis "Estimated marginal means, aka least-squares means") | |
7390 | (description | |
7391 | "This package provides tools to obtain @dfn{estimated marginal | |
7392 | means} (EMMs) for many linear, generalized linear, and mixed models. It can | |
7393 | be used to compute contrasts or linear functions of EMMs, trends, and | |
7394 | comparisons of slopes.") | |
7395 | ;; Either version of the license. | |
7396 | (license (list license:gpl2 license:gpl3)))) | |
63fcb88a RW |
7397 | |
7398 | (define-public r-pwr | |
7399 | (package | |
7400 | (name "r-pwr") | |
7401 | (version "1.2-2") | |
7402 | (source | |
7403 | (origin | |
7404 | (method url-fetch) | |
7405 | (uri (cran-uri "pwr" version)) | |
7406 | (sha256 | |
7407 | (base32 | |
7408 | "0r5g781lr677vp3zyhgmi7r68c87l8gd05l1s3ffnxgn5wf043sm")))) | |
7409 | (build-system r-build-system) | |
7410 | (native-inputs | |
7411 | `(("r-knitr" ,r-knitr))) | |
7412 | (home-page "https://github.com/heliosdrm/pwr") | |
7413 | (synopsis "Basic functions for power analysis") | |
7414 | (description | |
7415 | "This package provides power analysis functions along the lines of | |
7416 | Cohen (1988).") | |
7417 | (license license:gpl3+))) | |
bd531e83 RW |
7418 | |
7419 | (define-public r-coin | |
7420 | (package | |
7421 | (name "r-coin") | |
7422 | (version "1.2-2") | |
7423 | (source | |
7424 | (origin | |
7425 | (method url-fetch) | |
7426 | (uri (cran-uri "coin" version)) | |
7427 | (sha256 | |
7428 | (base32 | |
7429 | "1fq58793bymzig1syjg2lvn6hsxfwkhh00jfrchh3c0y7rfhc66m")))) | |
7430 | (build-system r-build-system) | |
7431 | (propagated-inputs | |
7432 | `(("r-modeltools" ,r-modeltools) | |
7433 | ("r-multcomp" ,r-multcomp) | |
7434 | ("r-mvtnorm" ,r-mvtnorm) | |
7435 | ("r-survival" ,r-survival))) | |
7436 | (home-page "http://coin.r-forge.r-project.org") | |
7437 | (synopsis "Conditional inference procedures in a permutation test framework") | |
7438 | (description | |
7439 | "This package provides conditional inference procedures for the general | |
7440 | independence problem including two-sample, K-sample (non-parametric ANOVA), | |
7441 | correlation, censored, ordered and multivariate problems.") | |
7442 | (license license:gpl2))) | |
9b3ecb60 RW |
7443 | |
7444 | (define-public r-bayesplot | |
7445 | (package | |
7446 | (name "r-bayesplot") | |
7447 | (version "1.6.0") | |
7448 | (source | |
7449 | (origin | |
7450 | (method url-fetch) | |
7451 | (uri (cran-uri "bayesplot" version)) | |
7452 | (sha256 | |
7453 | (base32 | |
7454 | "0in9cq2ybpa7njrwqx4l6nc8i01cjswsvzwlyiw465pi74aapr57")))) | |
7455 | (build-system r-build-system) | |
7456 | (inputs | |
7457 | `(("pandoc" ,ghc-pandoc) | |
7458 | ("pandoc-citeproc" ,ghc-pandoc-citeproc))) | |
7459 | (propagated-inputs | |
7460 | `(("r-dplyr" ,r-dplyr) | |
7461 | ("r-ggplot2" ,r-ggplot2) | |
7462 | ("r-ggridges" ,r-ggridges) | |
7463 | ("r-reshape2" ,r-reshape2) | |
7464 | ("r-rlang" ,r-rlang))) | |
7465 | (home-page "http://mc-stan.org/bayesplot") | |
7466 | (synopsis "Plotting for Bayesian models") | |
7467 | (description | |
7468 | "This package provides plotting functions for posterior analysis, model | |
7469 | checking, and MCMC diagnostics. The package is designed not only to provide | |
7470 | convenient functionality for users, but also a common set of functions that | |
7471 | can be easily used by developers working on a variety of R packages for | |
7472 | Bayesian modeling.") | |
7473 | (license license:gpl3+))) | |
3b8a3f55 RW |
7474 | |
7475 | (define-public r-tmb | |
7476 | (package | |
7477 | (name "r-tmb") | |
492ec498 | 7478 | (version "1.7.15") |
3b8a3f55 RW |
7479 | (source |
7480 | (origin | |
7481 | (method url-fetch) | |
7482 | (uri (cran-uri "TMB" version)) | |
7483 | (sha256 | |
7484 | (base32 | |
492ec498 | 7485 | "1r2d8c5iazihba42sn33yarv0dcfiy989sx64zcf14zr8k6cgjzs")))) |
3b8a3f55 RW |
7486 | (properties `((upstream-name . "TMB"))) |
7487 | (build-system r-build-system) | |
7488 | (propagated-inputs | |
7489 | `(("r-matrix" ,r-matrix) | |
7490 | ("r-rcppeigen" ,r-rcppeigen))) | |
7491 | (home-page "http://tmb-project.org") | |
7492 | (synopsis "Template model builder: a general random effect tool") | |
7493 | (description | |
7494 | "With this tool, a user should be able to quickly implement complex | |
7495 | random effect models through simple C++ templates. The package combines | |
7496 | @code{CppAD} (C++ automatic differentiation), @code{Eigen} (templated | |
7497 | matrix-vector library) and @code{CHOLMOD} (sparse matrix routines available | |
7498 | from R) to obtain an efficient implementation of the applied Laplace | |
7499 | approximation with exact derivatives. Key features are: Automatic sparseness | |
7500 | detection, parallelism through BLAS and parallel user templates.") | |
7501 | (license license:gpl2))) | |
aa4bde0b RW |
7502 | |
7503 | (define-public r-sjstats | |
7504 | (package | |
7505 | (name "r-sjstats") | |
1b144401 | 7506 | (version "0.17.3") |
aa4bde0b RW |
7507 | (source |
7508 | (origin | |
7509 | (method url-fetch) | |
7510 | (uri (cran-uri "sjstats" version)) | |
7511 | (sha256 | |
7512 | (base32 | |
1b144401 | 7513 | "02na2pzxp88yp52h7vs959fgydiddmns39m9x4i0vz8fp016bdf8")))) |
aa4bde0b RW |
7514 | (build-system r-build-system) |
7515 | (propagated-inputs | |
7516 | `(("r-bayesplot" ,r-bayesplot) | |
7517 | ("r-broom" ,r-broom) | |
7518 | ("r-coin" ,r-coin) | |
7519 | ("r-crayon" ,r-crayon) | |
7520 | ("r-dplyr" ,r-dplyr) | |
7521 | ("r-emmeans" ,r-emmeans) | |
7522 | ("r-glmmtmb" ,r-glmmtmb) | |
7523 | ("r-lme4" ,r-lme4) | |
7524 | ("r-magrittr" ,r-magrittr) | |
7525 | ("r-mass" ,r-mass) | |
7526 | ("r-matrix" ,r-matrix) | |
7527 | ("r-modelr" ,r-modelr) | |
7528 | ("r-nlme" ,r-nlme) | |
7529 | ("r-purrr" ,r-purrr) | |
7530 | ("r-pwr" ,r-pwr) | |
7531 | ("r-rlang" ,r-rlang) | |
7532 | ("r-sjlabelled" ,r-sjlabelled) | |
7533 | ("r-sjmisc" ,r-sjmisc) | |
7534 | ("r-tidyr" ,r-tidyr))) | |
7535 | (home-page "https://github.com/strengejacke/sjstats") | |
7536 | (synopsis "Functions for common statistical computations") | |
7537 | (description | |
7538 | "This package provides a collection of convenient functions for common | |
7539 | statistical computations, which are not directly provided by R's @code{base} | |
7540 | or @code{stats} packages. This package aims at providing, first, shortcuts | |
7541 | for statistical measures, which otherwise could only be calculated with | |
7542 | additional effort. Second, these shortcut functions are generic, and can be | |
7543 | applied not only to vectors, but also to other objects as well. The focus of | |
7544 | most functions lies on summary statistics or fit measures for regression | |
7545 | models, including generalized linear models, mixed effects models and Bayesian | |
7546 | models.") | |
7547 | (license license:gpl3))) | |
41394423 RW |
7548 | |
7549 | (define-public r-glmmtmb | |
7550 | (package | |
7551 | (name "r-glmmtmb") | |
1afe5644 | 7552 | (version "0.2.3") |
41394423 RW |
7553 | (source |
7554 | (origin | |
7555 | (method url-fetch) | |
7556 | (uri (cran-uri "glmmTMB" version)) | |
7557 | (sha256 | |
7558 | (base32 | |
1afe5644 | 7559 | "035hkywa37bz555fv6znxd4hfcs5w884365wfnwk4jx5vann4vvb")))) |
41394423 RW |
7560 | (properties `((upstream-name . "glmmTMB"))) |
7561 | (build-system r-build-system) | |
7562 | (propagated-inputs | |
7563 | `(("r-lme4" ,r-lme4) | |
7564 | ("r-matrix" ,r-matrix) | |
7565 | ("r-nlme" ,r-nlme) | |
7566 | ("r-rcppeigen" ,r-rcppeigen) | |
7567 | ("r-tmb" ,r-tmb))) | |
7568 | (native-inputs | |
1afe5644 | 7569 | `(("r-knitr" ,r-knitr))) ; for vignettes |
41394423 RW |
7570 | (home-page "https://github.com/glmmTMB") |
7571 | (synopsis "Generalized linear mixed models") | |
7572 | (description | |
7573 | "Fit linear and generalized linear mixed models with various extensions, | |
7574 | including zero-inflation. The models are fitted using maximum likelihood | |
7575 | estimation via the Template Model Builder. Random effects are assumed to be | |
7576 | Gaussian on the scale of the linear predictor and are integrated out using the | |
7577 | Laplace approximation. Gradients are calculated using automatic | |
7578 | differentiation.") | |
7579 | (license license:agpl3+))) | |
489a6178 RW |
7580 | |
7581 | (define-public r-ggeffects | |
7582 | (package | |
7583 | (name "r-ggeffects") | |
6eab52e0 | 7584 | (version "0.8.0") |
489a6178 RW |
7585 | (source |
7586 | (origin | |
7587 | (method url-fetch) | |
7588 | (uri (cran-uri "ggeffects" version)) | |
7589 | (sha256 | |
7590 | (base32 | |
6eab52e0 | 7591 | "152xyadj5m171z7dlzzy40y1fp2l9v46525dlw2al3qr0b7zpm61")))) |
489a6178 RW |
7592 | (build-system r-build-system) |
7593 | (propagated-inputs | |
7594 | `(("r-crayon" ,r-crayon) | |
7595 | ("r-dplyr" ,r-dplyr) | |
7596 | ("r-ggplot2" ,r-ggplot2) | |
7597 | ("r-lme4" ,r-lme4) | |
7598 | ("r-magrittr" ,r-magrittr) | |
7599 | ("r-mass" ,r-mass) | |
7600 | ("r-prediction" ,r-prediction) | |
7601 | ("r-purrr" ,r-purrr) | |
7602 | ("r-rlang" ,r-rlang) | |
7603 | ("r-scales" ,r-scales) | |
7604 | ("r-sjlabelled" ,r-sjlabelled) | |
7605 | ("r-sjmisc" ,r-sjmisc) | |
7606 | ("r-sjstats" ,r-sjstats) | |
7607 | ("r-tidyr" ,r-tidyr))) | |
7608 | (home-page "https://github.com/strengejacke/ggeffects") | |
7609 | (synopsis "Create tidy data frames of marginal effects for ggplot") | |
7610 | (description | |
7611 | "This package provides tools to compute marginal effects from statistical | |
7612 | models and return the result as tidy data frames. These data frames are ready | |
7613 | to use with the @code{ggplot2} package. Marginal effects can be calculated | |
7614 | for many different models. Interaction terms, splines and polynomial terms | |
7615 | are also supported. The two main functions are @code{ggpredict()} and | |
7616 | @code{ggeffect()}. There is a generic @code{plot()} method to plot the | |
7617 | results using @code{ggplot2}.") | |
7618 | (license license:gpl3))) | |
7b63047c RW |
7619 | |
7620 | (define-public r-sjplot | |
7621 | (package | |
7622 | (name "r-sjplot") | |
fd730167 | 7623 | (version "2.6.2") |
7b63047c RW |
7624 | (source |
7625 | (origin | |
7626 | (method url-fetch) | |
7627 | (uri (cran-uri "sjPlot" version)) | |
7628 | (sha256 | |
7629 | (base32 | |
fd730167 | 7630 | "0x9pbchmz4qf4c9bi52dhhgv1phfj03q1hnxic8vndl6xwib63cy")))) |
7b63047c RW |
7631 | (properties `((upstream-name . "sjPlot"))) |
7632 | (build-system r-build-system) | |
7633 | (propagated-inputs | |
7634 | `(("r-broom" ,r-broom) | |
7635 | ("r-dplyr" ,r-dplyr) | |
7636 | ("r-forcats" ,r-forcats) | |
7637 | ("r-ggeffects" ,r-ggeffects) | |
7638 | ("r-ggplot2" ,r-ggplot2) | |
7639 | ("r-glmmtmb" ,r-glmmtmb) | |
7640 | ("r-knitr" ,r-knitr) | |
7641 | ("r-lme4" ,r-lme4) | |
7642 | ("r-magrittr" ,r-magrittr) | |
7643 | ("r-mass" ,r-mass) | |
7644 | ("r-modelr" ,r-modelr) | |
7645 | ("r-nlme" ,r-nlme) | |
7646 | ("r-psych" ,r-psych) | |
7647 | ("r-purrr" ,r-purrr) | |
7648 | ("r-rlang" ,r-rlang) | |
7649 | ("r-scales" ,r-scales) | |
7650 | ("r-sjlabelled" ,r-sjlabelled) | |
7651 | ("r-sjmisc" ,r-sjmisc) | |
7652 | ("r-sjstats" ,r-sjstats) | |
7653 | ("r-tidyr" ,r-tidyr))) | |
7654 | (home-page "https://strengejacke.github.io/sjPlot/") | |
7655 | (synopsis "Data visualization for statistics in social science") | |
7656 | (description | |
7657 | "This package represents a collection of plotting and table output | |
7658 | functions for data visualization. Results of various statistical | |
7659 | analyses (that are commonly used in social sciences) can be visualized using | |
7660 | this package, including simple and cross tabulated frequencies, histograms, | |
7661 | box plots, (generalized) linear models, mixed effects models, principal | |
7662 | component analysis and correlation matrices, cluster analyses, scatter plots, | |
7663 | stacked scales, effects plots of regression models (including interaction | |
7664 | terms) and much more. This package supports labelled data.") | |
7665 | (license license:gpl3))) | |
03f80112 RW |
7666 | |
7667 | (define-public r-ini | |
7668 | (package | |
7669 | (name "r-ini") | |
7670 | (version "0.3.1") | |
7671 | (source | |
7672 | (origin | |
7673 | (method url-fetch) | |
7674 | (uri (cran-uri "ini" version)) | |
7675 | (sha256 | |
7676 | (base32 | |
7677 | "04yqij344dwm0xqgara8xia42mlmij3i8711qbb5534w05a1l6bv")))) | |
7678 | (build-system r-build-system) | |
7679 | (home-page "https://github.com/dvdscripter/ini") | |
7680 | (synopsis "Read and write configuration files") | |
7681 | (description | |
7682 | "This package provides tools to parse simple @code{.ini} configuration | |
7683 | files to an structured list. Users can manipulate this resulting list with | |
7684 | @code{lapply()} functions. This same structured list can be used to write | |
7685 | back to file after modifications.") | |
7686 | (license license:gpl3))) | |
21405e81 RW |
7687 | |
7688 | (define-public r-gh | |
7689 | (package | |
7690 | (name "r-gh") | |
7691 | (version "1.0.1") | |
7692 | (source | |
7693 | (origin | |
7694 | (method url-fetch) | |
7695 | (uri (cran-uri "gh" version)) | |
7696 | (sha256 | |
7697 | (base32 | |
7698 | "1llinfajb0g7006jd2w1hpskxpmkjhnqarcjb71r1qvsccb2ph7k")))) | |
7699 | (build-system r-build-system) | |
7700 | (propagated-inputs | |
7701 | `(("r-httr" ,r-httr) | |
7702 | ("r-ini" ,r-ini) | |
7703 | ("r-jsonlite" ,r-jsonlite))) | |
7704 | (home-page "https://github.com/r-lib/gh#readme") | |
7705 | (synopsis "Access the GitHub API via R") | |
7706 | (description | |
7707 | "This package provides a minimal R client to access the GitHub API.") | |
7708 | (license license:expat))) | |
d6871153 RW |
7709 | |
7710 | (define-public r-fs | |
7711 | (package | |
7712 | (name "r-fs") | |
7713 | (version "1.2.6") | |
7714 | (source | |
7715 | (origin | |
7716 | (method url-fetch) | |
7717 | (uri (cran-uri "fs" version)) | |
7718 | (sha256 | |
7719 | (base32 | |
7720 | "0kqqaqqml8x3r1mdld40iwns0ylj2f52qsdh1vcn39f7w7c2ka8j")))) | |
7721 | (build-system r-build-system) | |
7722 | (propagated-inputs | |
7723 | `(("r-rcpp" ,r-rcpp))) | |
7724 | (native-inputs | |
7725 | `(("pkg-config" ,pkg-config))) | |
7726 | (home-page "http://fs.r-lib.org") | |
7727 | (synopsis "Cross-platform file system operations based on libuv") | |
7728 | (description | |
7729 | "This package provides a cross-platform interface to file system | |
7730 | operations, built on top of the libuv C library.") | |
7731 | (license license:gpl3))) | |
153e5b2d RW |
7732 | |
7733 | (define-public r-clisymbols | |
7734 | (package | |
7735 | (name "r-clisymbols") | |
7736 | (version "1.2.0") | |
7737 | (source | |
7738 | (origin | |
7739 | (method url-fetch) | |
7740 | (uri (cran-uri "clisymbols" version)) | |
7741 | (sha256 | |
7742 | (base32 | |
7743 | "1q7gi2zmykhzas9v8fdnbpdq7pzdcpbhim1yxvd2062l777g4j86")))) | |
7744 | (build-system r-build-system) | |
7745 | (home-page "https://github.com/gaborcsardi/clisymbols") | |
7746 | (synopsis "Unicode symbols at the R prompt") | |
7747 | (description | |
7748 | "This package provides a small subset of Unicode symbols, that are useful | |
7749 | when building command line applications. They fall back to alternatives on | |
7750 | terminals that do not support Unicode.") | |
7751 | (license license:expat))) | |
efefd3ec RW |
7752 | |
7753 | (define-public r-usethis | |
7754 | (package | |
7755 | (name "r-usethis") | |
7756 | (version "1.4.0") | |
7757 | (source | |
7758 | (origin | |
7759 | (method url-fetch) | |
7760 | (uri (cran-uri "usethis" version)) | |
7761 | (sha256 | |
7762 | (base32 | |
7763 | "1gadckx3sxz9gxvpkprj9x7zcgg2nz5m4q0vi76ya9li1v03rwwn")))) | |
7764 | (build-system r-build-system) | |
7765 | (propagated-inputs | |
7766 | `(("r-clipr" ,r-clipr) | |
7767 | ("r-clisymbols" ,r-clisymbols) | |
7768 | ("r-crayon" ,r-crayon) | |
7769 | ("r-curl" ,r-curl) | |
7770 | ("r-desc" ,r-desc) | |
7771 | ("r-fs" ,r-fs) | |
7772 | ("r-gh" ,r-gh) | |
7773 | ("r-git2r" ,r-git2r) | |
7774 | ("r-glue" ,r-glue) | |
7775 | ("r-rlang" ,r-rlang) | |
7776 | ("r-rprojroot" ,r-rprojroot) | |
7777 | ("r-rstudioapi" ,r-rstudioapi) | |
7778 | ("r-whisker" ,r-whisker))) | |
7779 | (home-page "https://github.com/r-lib/usethis") | |
7780 | (synopsis "Automate R package and project setup") | |
7781 | (description | |
7782 | "This package helps you to automate R package and project setup tasks | |
7783 | that are otherwise performed manually. This includes setting up unit testing, | |
7784 | test coverage, continuous integration, Git, GitHub integration, licenses, | |
7785 | Rcpp, RStudio projects, and more.") | |
7786 | (license license:gpl3))) | |
99342624 RW |
7787 | |
7788 | (define-public r-sessioninfo | |
7789 | (package | |
7790 | (name "r-sessioninfo") | |
3d6fa1a3 | 7791 | (version "1.1.1") |
99342624 RW |
7792 | (source |
7793 | (origin | |
7794 | (method url-fetch) | |
7795 | (uri (cran-uri "sessioninfo" version)) | |
7796 | (sha256 | |
7797 | (base32 | |
3d6fa1a3 | 7798 | "0j5f3l58fynxx3v0w62vqpii7miabszgljpja36xx9s8hikh8sqn")))) |
99342624 RW |
7799 | (build-system r-build-system) |
7800 | (propagated-inputs | |
7801 | `(("r-cli" ,r-cli) | |
7802 | ("r-withr" ,r-withr))) | |
7803 | (home-page "https://github.com/r-lib/sessioninfo#readme") | |
7804 | (synopsis "R session information") | |
7805 | (description | |
7806 | "This package provides tools to query and print information about the | |
7807 | current R session. It is similar to @code{utils::sessionInfo()}, but includes | |
7808 | more information about packages, and where they were installed from.") | |
7809 | (license license:gpl2))) | |
cbc8e6dd RW |
7810 | |
7811 | (define-public r-remotes | |
7812 | (package | |
7813 | (name "r-remotes") | |
fc532b45 | 7814 | (version "2.0.2") |
cbc8e6dd RW |
7815 | (source |
7816 | (origin | |
7817 | (method url-fetch) | |
7818 | (uri (cran-uri "remotes" version)) | |
7819 | (sha256 | |
7820 | (base32 | |
fc532b45 | 7821 | "0rsjxmhwpr51ilsdjfqn06mj8yr2d7nckcn3arv1ljn23qfkpcxa")))) |
cbc8e6dd RW |
7822 | (build-system r-build-system) |
7823 | (home-page "https://github.com/r-lib/remotes#readme") | |
7824 | (synopsis "R package installation from remote repositories") | |
7825 | (description | |
7826 | "Download and install R packages stored in GitHub, BitBucket, or plain | |
7827 | subversion or git repositories. This package is a lightweight replacement of | |
7828 | the @code{install_*} functions in the @code{devtools} package. Indeed most of | |
7829 | the code was copied over from @code{devtools}.") | |
7830 | (license license:gpl2+))) | |
7d8f3470 RW |
7831 | |
7832 | (define-public r-xopen | |
7833 | (package | |
7834 | (name "r-xopen") | |
7835 | (version "1.0.0") | |
7836 | (source | |
7837 | (origin | |
7838 | (method url-fetch) | |
7839 | (uri (cran-uri "xopen" version)) | |
7840 | (sha256 | |
7841 | (base32 | |
7842 | "1vrvgdika1d63dwygynbv2wmd87ll8dji5dy89hj576n8hw601z2")))) | |
7843 | (build-system r-build-system) | |
7844 | (propagated-inputs | |
7845 | `(("r-processx" ,r-processx))) | |
7846 | (home-page "https://github.com/r-lib/xopen#readme") | |
7847 | (synopsis "Open system files, URLs, anything") | |
7848 | (description | |
7849 | "This package provides a cross-platform solution to open files, | |
7850 | directories or URLs with their associated programs.") | |
7851 | (license license:expat))) | |
5df4e27f RW |
7852 | |
7853 | (define-public r-rcmdcheck | |
7854 | (package | |
7855 | (name "r-rcmdcheck") | |
06910a86 | 7856 | (version "1.3.2") |
5df4e27f RW |
7857 | (source |
7858 | (origin | |
7859 | (method url-fetch) | |
7860 | (uri (cran-uri "rcmdcheck" version)) | |
7861 | (sha256 | |
7862 | (base32 | |
06910a86 | 7863 | "0ys1nd7690mhwzslyzg8fq1wxr28nz8g6av5iykkrshb8lkxg7ly")))) |
5df4e27f RW |
7864 | (build-system r-build-system) |
7865 | (propagated-inputs | |
7866 | `(("r-callr" ,r-callr) | |
7867 | ("r-cli" ,r-cli) | |
7868 | ("r-crayon" ,r-crayon) | |
7869 | ("r-desc" ,r-desc) | |
7870 | ("r-digest" ,r-digest) | |
7871 | ("r-pkgbuild" ,r-pkgbuild) | |
7872 | ("r-prettyunits" ,r-prettyunits) | |
7873 | ("r-r6" ,r-r6) | |
7874 | ("r-rprojroot" ,r-rprojroot) | |
7466c3bb | 7875 | ("r-sessioninfo" ,r-sessioninfo) |
5df4e27f RW |
7876 | ("r-withr" ,r-withr) |
7877 | ("r-xopen" ,r-xopen))) | |
7878 | (home-page "https://github.com/r-Lib/rcmdcheck#readme") | |
7879 | (synopsis "Run R CMD check from R and capture results") | |
7880 | (description | |
7881 | "Run @code{R CMD check} from R programmatically, and capture the results | |
7882 | of the individual checks.") | |
7883 | (license license:expat))) | |
9b02d1a1 RW |
7884 | |
7885 | (define-public r-rapportools | |
7886 | (package | |
7887 | (name "r-rapportools") | |
7888 | (version "1.0") | |
7889 | (source | |
7890 | (origin | |
7891 | (method url-fetch) | |
7892 | (uri (cran-uri "rapportools" version)) | |
7893 | (sha256 | |
7894 | (base32 | |
7895 | "1sgv4sc737i12arh5dc3263kjsz3dzg06qihfmrqyax94mv2d01b")))) | |
7896 | (build-system r-build-system) | |
7897 | (propagated-inputs | |
7898 | `(("r-pander" ,r-pander) | |
7899 | ("r-plyr" ,r-plyr) | |
7900 | ("r-reshape" ,r-reshape))) | |
7901 | (home-page "https://cran.r-project.org/web/packages/rapportools/") | |
7902 | (synopsis "Miscellaneous helper functions with sane defaults for reporting") | |
7903 | (description | |
7904 | "This package provides helper functions that act as wrappers to more | |
7905 | advanced statistical methods with the advantage of having sane defaults for | |
7906 | quick reporting.") | |
7907 | (license license:agpl3+))) | |
319a80ce RW |
7908 | |
7909 | (define-public r-pander | |
7910 | (package | |
7911 | (name "r-pander") | |
a44f8b00 | 7912 | (version "0.6.3") |
319a80ce RW |
7913 | (source |
7914 | (origin | |
7915 | (method url-fetch) | |
7916 | (uri (cran-uri "pander" version)) | |
7917 | (sha256 | |
7918 | (base32 | |
a44f8b00 | 7919 | "1bd9sdghlsppmff18k5fg3i0visq9f4wc82rlhwq5m82bmgdgnyi")))) |
319a80ce RW |
7920 | (build-system r-build-system) |
7921 | (propagated-inputs | |
7922 | `(("r-digest" ,r-digest) | |
7923 | ("r-rcpp" ,r-rcpp))) | |
7924 | (home-page "https://rapporter.github.io/pander") | |
7925 | (synopsis "Render R objects into Pandoc's markdown") | |
7926 | (description | |
7927 | "The main aim of the pander R package is to provide a minimal and easy | |
7928 | tool for rendering R objects into Pandoc's markdown. The package is also | |
7929 | capable of exporting/converting complex Pandoc documents (reports) in various | |
7930 | ways.") | |
7931 | ;; This package is licensed under either the AGPLv3+ or the very rarely | |
7932 | ;; used OSL 3.0. | |
7933 | (license license:agpl3+))) | |
74cc74e4 RW |
7934 | |
7935 | (define-public r-summarytools | |
7936 | (package | |
7937 | (name "r-summarytools") | |
7938 | (version "0.8.8") | |
7939 | (source | |
7940 | (origin | |
7941 | (method url-fetch) | |
7942 | (uri (cran-uri "summarytools" version)) | |
7943 | (sha256 | |
7944 | (base32 | |
7945 | "0z836m6ib9bznwcawn6xf8gck05ydxwi3bx4jbrbyqql4kci8zwb")))) | |
7946 | (build-system r-build-system) | |
7947 | (propagated-inputs | |
7948 | `(("r-htmltools" ,r-htmltools) | |
7949 | ("r-lubridate" ,r-lubridate) | |
7950 | ("r-matrixstats" ,r-matrixstats) | |
7951 | ("r-pander" ,r-pander) | |
7952 | ("r-pryr" ,r-pryr) | |
7953 | ("r-rapportools" ,r-rapportools) | |
7954 | ("r-rcurl" ,r-rcurl))) | |
7955 | (home-page "https://github.com/dcomtois/summarytools") | |
7956 | (synopsis "Tools to quickly and neatly summarize data") | |
7957 | (description | |
7958 | "This package provides tools for data frame summaries, cross-tabulations, | |
7959 | weight-enabled frequency tables and common univariate statistics in concise | |
7960 | tables available in a variety of formats (plain ASCII, Markdown and HTML). A | |
7961 | good point-of-entry for exploring data, both for experienced and new R | |
7962 | users.") | |
7963 | (license license:gpl2))) | |
7c7ee6cf RW |
7964 | |
7965 | (define-public r-lsei | |
7966 | (package | |
7967 | (name "r-lsei") | |
7968 | (version "1.2-0") | |
7969 | (source | |
7970 | (origin | |
7971 | (method url-fetch) | |
7972 | (uri (cran-uri "lsei" version)) | |
7973 | (sha256 | |
7974 | (base32 | |
7975 | "1xl06fb3is744pxlh42wx5hn1h0ab1k31wnmsmh0524kxzcyp0a7")))) | |
7976 | (build-system r-build-system) | |
7977 | (native-inputs | |
7978 | `(("gfortran" ,gfortran))) | |
7979 | (home-page "https://www.stat.auckland.ac.nz/~yongwang") | |
7980 | (synopsis "Solve regression problems under equality/inequality constraints") | |
7981 | (description | |
7982 | "It contains functions that solve least squares linear regression | |
7983 | problems under linear equality/inequality constraints. Functions for solving | |
7984 | quadratic programming problems are also available, which transform such | |
7985 | problems into least squares ones first.") | |
7986 | (license license:gpl2+))) | |
2ea75a83 RW |
7987 | |
7988 | (define-public r-npsurv | |
7989 | (package | |
7990 | (name "r-npsurv") | |
7991 | (version "0.4-0") | |
7992 | (source | |
7993 | (origin | |
7994 | (method url-fetch) | |
7995 | (uri (cran-uri "npsurv" version)) | |
7996 | (sha256 | |
7997 | (base32 | |
7998 | "1wq4c9yfha5azjhrn40iiqkshmvh611sa90jp3lh82n4bl9zfk20")))) | |
7999 | (build-system r-build-system) | |
8000 | (propagated-inputs | |
8001 | `(("r-lsei" ,r-lsei))) | |
8002 | (home-page "https://www.stat.auckland.ac.nz/~yongwang") | |
8003 | (synopsis "Nonparametric survival analysis") | |
8004 | (description | |
8005 | "This package contains functions for non-parametric survival analysis of | |
8006 | exact and interval-censored observations.") | |
8007 | (license license:gpl2+))) | |
32499b26 RW |
8008 | |
8009 | (define-public r-clusteval | |
8010 | (package | |
8011 | (name "r-clusteval") | |
8012 | (version "0.1") | |
8013 | (source | |
8014 | (origin | |
8015 | (method url-fetch) | |
8016 | (uri (cran-uri "clusteval" version)) | |
8017 | (sha256 | |
8018 | (base32 | |
8019 | "1ld0bdl4fy8dsfzm3k7a37cyxc6pfc9qs31x4pxd3z5rslghz7rj")))) | |
8020 | (build-system r-build-system) | |
8021 | (propagated-inputs | |
8022 | `(("r-mvtnorm" ,r-mvtnorm) | |
8023 | ("r-rcpp" ,r-rcpp))) | |
8024 | (home-page "https://cran.r-project.org/web/packages/clusteval/") | |
8025 | (synopsis "Evaluation of clustering algorithms") | |
8026 | (description | |
8027 | "This R package provides a suite of tools to evaluate clustering | |
8028 | algorithms, clusterings, and individual clusters.") | |
8029 | (license license:expat))) | |
373cef0a RW |
8030 | |
8031 | (define-public r-tweedie | |
8032 | (package | |
8033 | (name "r-tweedie") | |
8034 | (version "2.3.2") | |
8035 | (source | |
8036 | (origin | |
8037 | (method url-fetch) | |
8038 | (uri (cran-uri "tweedie" version)) | |
8039 | (sha256 | |
8040 | (base32 | |
8041 | "10fv998qjxsyx0h94fi0xbh6xbf24nwgh254n9zfnmix9vk2cqls")))) | |
8042 | (build-system r-build-system) | |
8043 | (native-inputs `(("gfortran" ,gfortran))) | |
8044 | (home-page "https://cran.r-project.org/web/packages/tweedie/") | |
8045 | (synopsis "Evaluation of Tweedie exponential family models") | |
8046 | (description | |
8047 | "Maximum likelihood computations for Tweedie families, including the | |
8048 | series expansion (Dunn and Smyth, 2005; <doi10.1007/s11222-005-4070-y>) and | |
8049 | the Fourier inversion (Dunn and Smyth, 2008; <doi:10.1007/s11222-007-9039-6>), | |
8050 | and related methods.") | |
8051 | (license license:gpl2+))) | |
4fb35ebd RW |
8052 | |
8053 | (define-public r-rcppgsl | |
8054 | (package | |
8055 | (name "r-rcppgsl") | |
8056 | (version "0.3.6") | |
8057 | (source | |
8058 | (origin | |
8059 | (method url-fetch) | |
8060 | (uri (cran-uri "RcppGSL" version)) | |
8061 | (sha256 | |
8062 | (base32 | |
8063 | "16pdapq31729db53agnb48jkvdm97167n3bigy5zazc3q3isis1m")))) | |
8064 | (properties `((upstream-name . "RcppGSL"))) | |
8065 | (build-system r-build-system) | |
8066 | (propagated-inputs | |
8067 | `(("r-rcpp" ,r-rcpp) | |
8068 | ("gsl" ,gsl))) | |
8069 | (native-inputs | |
8070 | `(("r-knitr" ,r-knitr))) ; for vignettes | |
8071 | (home-page "https://cran.r-project.org/web/packages/RcppGSL/") | |
8072 | (synopsis "Rcpp integration for GSL vectors and matrices") | |
8073 | (description | |
8074 | "The GNU Scientific Library (or GSL) is a collection of numerical | |
8075 | routines for scientific computing. It is particularly useful for C and C++ | |
8076 | programs as it provides a standard C interface to a wide range of mathematical | |
8077 | routines. There are over 1000 functions in total with an extensive test | |
8078 | suite. The RcppGSL package provides an easy-to-use interface between GSL data | |
8079 | structures and R using concepts from Rcpp which is itself a package that eases | |
8080 | the interfaces between R and C++.") | |
8081 | (license license:gpl2+))) | |
20ff6e3a RW |
8082 | |
8083 | (define-public r-mvabund | |
8084 | (package | |
8085 | (name "r-mvabund") | |
48102ce1 | 8086 | (version "4.0.1") |
20ff6e3a RW |
8087 | (source |
8088 | (origin | |
8089 | (method url-fetch) | |
8090 | (uri (cran-uri "mvabund" version)) | |
8091 | (sha256 | |
8092 | (base32 | |
48102ce1 | 8093 | "0la935gsiryfc0zixxr1dqj0av271x96pqxbi3bp6dksbw5gm68k")))) |
20ff6e3a RW |
8094 | (build-system r-build-system) |
8095 | (propagated-inputs | |
8096 | `(("r-mass" ,r-mass) | |
8097 | ("r-rcpp" ,r-rcpp) | |
8098 | ("r-rcppgsl" ,r-rcppgsl) | |
8099 | ("r-statmod" ,r-statmod) | |
8100 | ("r-tweedie" ,r-tweedie))) | |
8101 | (home-page "https://cran.r-project.org/web/packages/mvabund/") | |
8102 | (synopsis "Statistical methods for analysing multivariate abundance data") | |
8103 | (description | |
8104 | "This package provides a set of tools for displaying, modeling and | |
8105 | analysing multivariate abundance data in community ecology.") | |
8106 | (license license:lgpl2.1+))) | |
49863fd6 RW |
8107 | |
8108 | (define-public r-afex | |
8109 | (package | |
8110 | (name "r-afex") | |
8111 | (version "0.22-1") | |
8112 | (source | |
8113 | (origin | |
8114 | (method url-fetch) | |
8115 | (uri (cran-uri "afex" version)) | |
8116 | (sha256 | |
8117 | (base32 | |
8118 | "065wbxljl77zqvc2c4gpfpfyc6mbnnrf24q399q9bxmrz3sapj8n")))) | |
8119 | (build-system r-build-system) | |
8120 | (propagated-inputs | |
8121 | `(("r-car" ,r-car) | |
8122 | ("r-lme4" ,r-lme4) | |
8123 | ("r-lmertest" ,r-lmertest) | |
8124 | ("r-pbkrtest" ,r-pbkrtest) | |
8125 | ("r-reshape2" ,r-reshape2))) | |
8126 | (home-page "https://afex.singmann.science/") | |
8127 | (synopsis "Analysis of factorial experiments") | |
8128 | (description | |
8129 | "This package provides convenience functions for analyzing factorial | |
8130 | experiments using ANOVA or mixed models.") | |
8131 | (license license:gpl2+))) | |
7c02dd62 RW |
8132 | |
8133 | (define-public r-lmertest | |
8134 | (package | |
8135 | (name "r-lmertest") | |
8136 | (version "3.0-1") | |
8137 | (source | |
8138 | (origin | |
8139 | (method url-fetch) | |
8140 | (uri (cran-uri "lmerTest" version)) | |
8141 | (sha256 | |
8142 | (base32 | |
8143 | "0pia69sc8bn37mkiprdf91iilziqb865f94k6x6c26i33fg7rq4m")))) | |
8144 | (properties `((upstream-name . "lmerTest"))) | |
8145 | (build-system r-build-system) | |
8146 | (propagated-inputs | |
8147 | `(("r-ggplot2" ,r-ggplot2) | |
8148 | ("r-lme4" ,r-lme4) | |
8149 | ("r-mass" ,r-mass) | |
8150 | ("r-numderiv" ,r-numderiv))) | |
8151 | (home-page "https://github.com/runehaubo/lmerTestR") | |
8152 | (synopsis "Tests in linear mixed effects models") | |
8153 | (description | |
8154 | "This package provides p-values in type I, II or III anova and summary | |
8155 | tables for @code{lmer} model fits via Satterthwaite's degrees of freedom | |
8156 | method. A Kenward-Roger method is also available via the @code{pbkrtest} | |
8157 | package. Model selection methods include step, drop1 and anova-like tables | |
8158 | for random effects (ranova). Methods for Least-Square means (LS-means) and | |
8159 | tests of linear contrasts of fixed effects are also available.") | |
8160 | (license license:gpl2+))) | |
fd649d1e RW |
8161 | |
8162 | (define-public r-r2glmm | |
8163 | (package | |
8164 | (name "r-r2glmm") | |
8165 | (version "0.1.2") | |
8166 | (source | |
8167 | (origin | |
8168 | (method url-fetch) | |
8169 | (uri (cran-uri "r2glmm" version)) | |
8170 | (sha256 | |
8171 | (base32 | |
8172 | "0iim92blpa59vgz97c2pi05yhbjjmaffdbkbmk5kplfb2vmazgiy")))) | |
8173 | (build-system r-build-system) | |
8174 | (propagated-inputs | |
8175 | `(("r-afex" ,r-afex) | |
8176 | ("r-data-table" ,r-data-table) | |
8177 | ("r-dplyr" ,r-dplyr) | |
8178 | ("r-ggplot2" ,r-ggplot2) | |
8179 | ("r-gridextra" ,r-gridextra) | |
8180 | ("r-lmertest" ,r-lmertest) | |
8181 | ("r-mass" ,r-mass) | |
8182 | ("r-matrix" ,r-matrix) | |
8183 | ("r-mgcv" ,r-mgcv) | |
8184 | ("r-pbkrtest" ,r-pbkrtest))) | |
8185 | (home-page "https://github.com/bcjaeger/r2glmm") | |
8186 | (synopsis "Compute R squared for mixed (multilevel) models") | |
8187 | (description | |
8188 | "This package computes model and semi partial R squared with confidence | |
8189 | limits for the linear and generalized linear mixed model (LMM and GLMM). The | |
8190 | R squared measure from L. J. Edwards et al. (2008) is extended to the GLMM | |
8191 | using @dfn{penalized quasi-likelihood} (PQL) estimation (see Jaeger et | |
8192 | al. (2016)).") | |
8193 | (license license:gpl2))) | |
cddc0300 | 8194 | |
8195 | (define-public r-weights | |
8196 | (package | |
8197 | (name "r-weights") | |
8198 | (version "1.0") | |
8199 | (source | |
8200 | (origin | |
8201 | (method url-fetch) | |
8202 | (uri (cran-uri "weights" version)) | |
8203 | (sha256 | |
8204 | (base32 | |
8205 | "0186bfpkhxngrshac6bpg37alp6slwhwd43inrm8hqg0vhpfgc4c")))) | |
8206 | (build-system r-build-system) | |
8207 | (propagated-inputs | |
8208 | `(("r-gdata" ,r-gdata) | |
8209 | ("r-hmisc" ,r-hmisc) | |
8210 | ("r-mice" ,r-mice))) | |
8211 | (home-page | |
8212 | "https://cran.r-project.org/web/packages/weights/") | |
8213 | (synopsis "Weighting and weighted statistics") | |
8214 | (description "This package Provides a variety of functions for producing | |
8215 | simple weighted statistics, such as weighted Pearson's correlations, partial | |
8216 | correlations, Chi-Squared statistics, histograms, and t-tests. Also now | |
8217 | includes some software for quickly recoding survey data and plotting point | |
8218 | estimates from interaction terms in regressions (and multiply imputed | |
8219 | regressions). NOTE: Weighted partial correlation calculations pulled to | |
8220 | address a bug.") | |
8221 | (license license:gpl2+))) | |
bfa5662e RW |
8222 | |
8223 | (define-public r-rcppannoy | |
8224 | (package | |
8225 | (name "r-rcppannoy") | |
8226 | (version "0.0.11") | |
8227 | (source | |
8228 | (origin | |
8229 | (method url-fetch) | |
8230 | (uri (cran-uri "RcppAnnoy" version)) | |
8231 | (sha256 | |
8232 | (base32 | |
8233 | "1ik50ancfgcvh03n4jsqwjk8lf056rbgd70q4l4didmvh5kcyjd1")))) | |
8234 | (properties `((upstream-name . "RcppAnnoy"))) | |
8235 | (build-system r-build-system) | |
8236 | (propagated-inputs | |
8237 | `(("r-rcpp" ,r-rcpp))) | |
8238 | (native-inputs | |
8239 | `(("r-knitr" ,r-knitr))) ; for vignettes | |
8240 | (home-page "https://cran.r-project.org/web/packages/RcppAnnoy/") | |
8241 | (synopsis "Rcpp bindings for Annoy, a library for Approximate Nearest Neighbors") | |
8242 | (description | |
8243 | "Annoy is a small C++ library for Approximate Nearest Neighbors written | |
8244 | for efficient memory usage as well an ability to load from and save to disk. | |
8245 | This package provides an R interface.") | |
8246 | ;; Annoy is released under ASL 2.0, but this wrapper is released under | |
8247 | ;; GPLv2+. | |
8248 | (license (list license:gpl2+ license:asl2.0)))) | |
b58940cb RW |
8249 | |
8250 | (define-public r-ncdf4 | |
8251 | (package | |
8252 | (name "r-ncdf4") | |
8253 | (version "1.16") | |
8254 | (source | |
8255 | (origin | |
8256 | (method url-fetch) | |
8257 | (uri (cran-uri "ncdf4" version)) | |
8258 | (sha256 | |
8259 | (base32 | |
8260 | "0lwjjis0b83c4l3xvqai4ckzrskd6mychck1iwxcxgjvh0d77mgd")))) | |
8261 | (build-system r-build-system) | |
8262 | (inputs | |
8263 | `(("netcdf" ,netcdf) | |
8264 | ("zlib" ,zlib))) | |
8265 | (home-page "https://cran.r-project.org/web/packages/ncdf4/index.html") | |
8266 | (synopsis "R interface to Unidata netCDF format data files") | |
8267 | (description | |
8268 | "This package provides a high-level R interface to data files written | |
8269 | using Unidata's netCDF library (version 4 or earlier), which are binary data | |
8270 | files that are portable across platforms and include metadata information in | |
8271 | addition to the data sets. Using this package, netCDF files can be opened and | |
8272 | data sets read in easily. It is also easy to create new netCDF dimensions, | |
8273 | variables, and files, in either version 3 or 4 format, and manipulate existing | |
8274 | netCDF files.") | |
8275 | (license license:gpl3+))) | |
1e605c03 RW |
8276 | |
8277 | (define-public r-biocmanager | |
8278 | (package | |
8279 | (name "r-biocmanager") | |
749872a5 | 8280 | (version "1.30.4") |
1e605c03 RW |
8281 | (source |
8282 | (origin | |
8283 | (method url-fetch) | |
8284 | (uri (cran-uri "BiocManager" version)) | |
8285 | (sha256 | |
8286 | (base32 | |
749872a5 | 8287 | "0kxs76pixk1d2lpvkyrq6nnvv1rqf55ph5f7igkadyyqirf3y2ah")))) |
1e605c03 RW |
8288 | (properties `((upstream-name . "BiocManager"))) |
8289 | (build-system r-build-system) | |
8290 | (home-page "https://cran.r-project.org/web/packages/BiocManager/") | |
8291 | (synopsis "Access the Bioconductor project package repository") | |
8292 | (description | |
8293 | "This package provides a convenient tool to install and update | |
8294 | Bioconductor packages.") | |
8295 | (license license:artistic2.0))) | |
f338e480 RW |
8296 | |
8297 | (define-public r-rgl | |
8298 | (package | |
8299 | (name "r-rgl") | |
8300 | (version "0.99.16") | |
8301 | (source | |
8302 | (origin | |
8303 | (method url-fetch) | |
8304 | (uri (cran-uri "rgl" version)) | |
8305 | (sha256 | |
8306 | (base32 | |
8307 | "0q8sg8fr0140ilssqhscaxkjc29w1rpp6f4k50amw3zzs9g58ak9")))) | |
8308 | (build-system r-build-system) | |
8309 | (native-inputs | |
8310 | `(("pkg-config" ,pkg-config))) | |
8311 | (inputs | |
8312 | `(("freetype" ,freetype) | |
8313 | ("libpng" ,libpng) | |
8314 | ("glu" ,glu) | |
8315 | ("libx11" ,libx11) | |
8316 | ("ghc-pandoc" ,ghc-pandoc) | |
8317 | ("zlib" ,zlib))) | |
8318 | (propagated-inputs | |
8319 | `(("r-crosstalk" ,r-crosstalk) | |
8320 | ("r-htmltools" ,r-htmltools) | |
8321 | ("r-htmlwidgets" ,r-htmlwidgets) | |
8322 | ("r-jsonlite" ,r-jsonlite) | |
8323 | ("r-knitr" ,r-knitr) | |
8324 | ("r-magrittr" ,r-magrittr) | |
8325 | ("r-manipulatewidget" ,r-manipulatewidget) | |
8326 | ("r-shiny" ,r-shiny))) | |
8327 | (home-page "https://r-forge.r-project.org/projects/rgl/") | |
8328 | (synopsis "3D visualization using OpenGL") | |
8329 | (description | |
8330 | "This package provides medium to high level functions for 3D interactive graphics, | |
8331 | including functions modelled on base graphics (@code{plot3d()}, etc.) as well | |
8332 | as functions for constructing representations of geometric | |
8333 | objects (@code{cube3d()}, etc.). Output may be on screen using OpenGL, or to | |
8334 | various standard 3D file formats including WebGL, PLY, OBJ, STL as well as 2D | |
8335 | image formats, including PNG, Postscript, SVG, PGF.") | |
8336 | ;; Any version of the GPL. | |
8337 | (license (list license:gpl2+ license:gpl3+)))) | |
213e72a1 RW |
8338 | |
8339 | (define-public r-multicool | |
8340 | (package | |
8341 | (name "r-multicool") | |
8342 | (version "0.1-10") | |
8343 | (source | |
8344 | (origin | |
8345 | (method url-fetch) | |
8346 | (uri (cran-uri "multicool" version)) | |
8347 | (sha256 | |
8348 | (base32 | |
8349 | "1ybg9piya9psqg42w9i3zsnavbxhkfklfwl7cb420i5nkq6wpc2v")))) | |
8350 | (build-system r-build-system) | |
8351 | (propagated-inputs `(("r-rcpp" ,r-rcpp))) | |
8352 | (home-page "https://cran.r-project.org/web/packages/multicool/") | |
8353 | (synopsis "Permutations of multisets in cool-lex order") | |
8354 | (description | |
8355 | "This package provides a set of tools to permute multisets without loops | |
8356 | or hash tables and to generate integer partitions. Cool-lex order is similar | |
8357 | to colexicographical order.") | |
8358 | (license license:gpl2))) | |
4106e6ad RW |
8359 | |
8360 | (define-public r-misc3d | |
8361 | (package | |
8362 | (name "r-misc3d") | |
8363 | (version "0.8-4") | |
8364 | (source | |
8365 | (origin | |
8366 | (method url-fetch) | |
8367 | (uri (cran-uri "misc3d" version)) | |
8368 | (sha256 | |
8369 | (base32 | |
8370 | "0qjzpw3h09qi2gfz52b7nhzd95p7yyxsd03fldc9wzzn6wi3vpkm")))) | |
8371 | (build-system r-build-system) | |
8372 | (home-page "https://cran.r-project.org/web/packages/misc3d/") | |
8373 | (synopsis "Miscellaneous 3D Plots") | |
8374 | (description | |
8375 | "This package provides a collection of miscellaneous 3d plots, including | |
8376 | isosurfaces.") | |
8377 | ;; Any version of the GPL. | |
8378 | (license (list license:gpl2+ license:gpl3+)))) | |
da256afb RW |
8379 | |
8380 | (define-public r-ks | |
8381 | (package | |
8382 | (name "r-ks") | |
8383 | (version "1.11.3") | |
8384 | (source | |
8385 | (origin | |
8386 | (method url-fetch) | |
8387 | (uri (cran-uri "ks" version)) | |
8388 | (sha256 | |
8389 | (base32 | |
8390 | "0z749c3xzpf6n0g7xcfplrhap1di8k7kcfr7vigh95ywnigyhs8d")))) | |
8391 | (build-system r-build-system) | |
8392 | (propagated-inputs | |
8393 | `(("r-fnn" ,r-fnn) | |
8394 | ("r-kernlab" ,r-kernlab) | |
8395 | ("r-kernsmooth" ,r-kernsmooth) | |
8396 | ("r-matrix" ,r-matrix) | |
8397 | ("r-mclust" ,r-mclust) | |
8398 | ("r-mgcv" ,r-mgcv) | |
8399 | ("r-misc3d" ,r-misc3d) | |
8400 | ("r-multicool" ,r-multicool) | |
8401 | ("r-mvtnorm" ,r-mvtnorm))) | |
8402 | (home-page "http://www.mvstat.net/tduong/") | |
8403 | (synopsis "Kernel smoothing") | |
8404 | (description | |
8405 | "This package provides kernel smoothers for univariate and multivariate | |
8406 | data, including density functions, density derivatives, cumulative | |
8407 | distributions, modal clustering, discriminant analysis, and two-sample | |
8408 | hypothesis testing.") | |
8409 | ;; Either version of the GPL. | |
8410 | (license (list license:gpl2 license:gpl3)))) | |
cf383cf0 RW |
8411 | |
8412 | (define-public r-feature | |
8413 | (package | |
8414 | (name "r-feature") | |
8415 | (version "1.2.13") | |
8416 | (source | |
8417 | (origin | |
8418 | (method url-fetch) | |
8419 | (uri (cran-uri "feature" version)) | |
8420 | (sha256 | |
8421 | (base32 | |
8422 | "07hkw0bv38naj2hdsx4xxrm2dngi6w3rbvgr7s50bjic8hlgy1ra")))) | |
8423 | (build-system r-build-system) | |
8424 | (propagated-inputs | |
8425 | `(("r-ks" ,r-ks) | |
8426 | ("r-misc3d" ,r-misc3d) | |
8427 | ("r-rgl" ,r-rgl))) | |
8428 | (home-page "http://www.mvstat.net/tduong/") | |
8429 | (synopsis "Inferential feature significance for kernel density estimation") | |
8430 | (description | |
8431 | "The feature package contains functions to display and compute kernel | |
8432 | density estimates, significant gradient and significant curvature regions. | |
8433 | Significant gradient and/or curvature regions often correspond to significant | |
8434 | features (e.g. local modes).") | |
8435 | ;; Either version of the GPL. | |
8436 | (license (list license:gpl2 license:gpl3)))) | |
06bc7b82 RW |
8437 | |
8438 | (define-public r-arm | |
8439 | (package | |
8440 | (name "r-arm") | |
8441 | (version "1.10-1") | |
8442 | (source | |
8443 | (origin | |
8444 | (method url-fetch) | |
8445 | (uri (cran-uri "arm" version)) | |
8446 | (sha256 | |
8447 | (base32 | |
8448 | "0vvp90jygajd6ydky57z66wqjq9msfbl88irj5jbsray574mh4bg")))) | |
8449 | (build-system r-build-system) | |
8450 | (propagated-inputs | |
8451 | `(("r-abind" ,r-abind) | |
8452 | ("r-coda" ,r-coda) | |
8453 | ("r-lme4" ,r-lme4) | |
8454 | ("r-mass" ,r-mass) | |
8455 | ("r-matrix" ,r-matrix) | |
8456 | ("r-nlme" ,r-nlme))) | |
8457 | (home-page "https://cran.r-project.org/web/packages/arm/") | |
8458 | (synopsis "Data analysis using regression and multilevel/hierarchical models") | |
8459 | (description | |
8460 | "This package provides functions to accompany A. Gelman and J. Hill, | |
8461 | Data Analysis Using Regression and Multilevel/Hierarchical Models, Cambridge | |
8462 | University Press, 2007.") | |
8463 | (license license:gpl3+))) | |
3cef715a RW |
8464 | |
8465 | (define-public r-circular | |
8466 | (package | |
8467 | (name "r-circular") | |
8468 | (version "0.4-93") | |
8469 | (source | |
8470 | (origin | |
8471 | (method url-fetch) | |
8472 | (uri (cran-uri "circular" version)) | |
8473 | (sha256 | |
8474 | (base32 | |
8475 | "0hki85rs8wc5950pjaw28q54rly2napfbcrx3pchlfap6wwy5kkn")))) | |
8476 | (build-system r-build-system) | |
8477 | (propagated-inputs | |
8478 | `(("r-boot" ,r-boot) | |
8479 | ("r-mvtnorm" ,r-mvtnorm))) | |
8480 | (native-inputs | |
8481 | `(("gfortran" ,gfortran))) | |
8482 | (home-page "https://cran.r-project.org/web/packages/circular/") | |
8483 | (synopsis "Circular statistics") | |
8484 | (description | |
8485 | "This package provides tools for circular statistics, from \"Topics in | |
8486 | circular Statistics\" (2001) S. Rao Jammalamadaka and A. SenGupta, World | |
8487 | Scientific.") | |
8488 | (license license:gpl2+))) | |
10483a64 RW |
8489 | |
8490 | (define-public r-activity | |
8491 | (package | |
8492 | (name "r-activity") | |
8493 | (version "1.1") | |
8494 | (source | |
8495 | (origin | |
8496 | (method url-fetch) | |
8497 | (uri (cran-uri "activity" version)) | |
8498 | (sha256 | |
8499 | (base32 | |
8500 | "1lqajgxfps2h6amz1791vp3f52rs9ghmanq1nqfxqd2jmk3idkrx")))) | |
8501 | (build-system r-build-system) | |
8502 | (propagated-inputs | |
8503 | `(("r-circular" ,r-circular) | |
8504 | ("r-overlap" ,r-overlap) | |
8505 | ("r-pbapply" ,r-pbapply))) | |
8506 | (home-page "https://cran.r-project.org/web/packages/activity/") | |
8507 | (synopsis "Animal activity statistics") | |
8508 | (description | |
8509 | "This package provides functions to fit kernel density functions to | |
8510 | animal activity time data; plot activity distributions; quantify overall | |
8511 | levels of activity; statistically compare activity metrics through | |
8512 | bootstrapping; and evaluate variation in linear variables with time (or other | |
8513 | circular variables).") | |
8514 | (license license:gpl3))) | |
e4f4a04a RW |
8515 | |
8516 | (define-public r-ouch | |
8517 | (package | |
8518 | (name "r-ouch") | |
8519 | (version "2.11-1") | |
8520 | (source | |
8521 | (origin | |
8522 | (method url-fetch) | |
8523 | (uri (cran-uri "ouch" version)) | |
8524 | (sha256 | |
8525 | (base32 | |
8526 | "0xkwwi62vdahlcg3k32zb1nfwsx87zdssk79mvcxgfsw9bw4gahx")))) | |
8527 | (build-system r-build-system) | |
8528 | (propagated-inputs `(("r-subplex" ,r-subplex))) | |
8529 | (home-page "http://kingaa.github.io/ouch/") | |
8530 | (synopsis "Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses") | |
8531 | (description | |
8532 | "This package provides tools to fit and compare Ornstein-Uhlenbeck models | |
8533 | for evolution along a phylogenetic tree.") | |
8534 | (license license:gpl2+))) | |
705ea5bf RW |
8535 | |
8536 | (define-public r-fmsb | |
8537 | (package | |
8538 | (name "r-fmsb") | |
8539 | (version "0.6.3") | |
8540 | (source | |
8541 | (origin | |
8542 | (method url-fetch) | |
8543 | (uri (cran-uri "fmsb" version)) | |
8544 | (sha256 | |
8545 | (base32 | |
8546 | "1n29bnyp20pvpk2lsa9fblsj5w7amp14snc74pk5w3yr5y6rj0s5")))) | |
8547 | (build-system r-build-system) | |
8548 | (home-page "http://minato.sip21c.org/msb/") | |
8549 | (synopsis "Functions for medical statistics book with demographic data") | |
8550 | (description | |
8551 | "This package provides several utility functions for the book entitled | |
8552 | \"Practices of Medical and Health Data Analysis using R\" (Pearson Education | |
8553 | Japan, 2007) with Japanese demographic data and some demographic analysis | |
8554 | related functions.") | |
8555 | (license license:gpl2+))) | |
ced51a20 RW |
8556 | |
8557 | (define-public r-stabledist | |
8558 | (package | |
8559 | (name "r-stabledist") | |
8560 | (version "0.7-1") | |
8561 | (source | |
8562 | (origin | |
8563 | (method url-fetch) | |
8564 | (uri (cran-uri "stabledist" version)) | |
8565 | (sha256 | |
8566 | (base32 | |
8567 | "0scar396wiq6wkbkvwp4qrxqc1m075y56p37i6iry5rw796p1i86")))) | |
8568 | (build-system r-build-system) | |
8569 | (home-page "http://www.rmetrics.org") | |
8570 | (synopsis "Stable distribution functions") | |
8571 | (description | |
8572 | "This package provides density, probability and quantile functions, and | |
8573 | random number generation for (skew) stable distributions, using the | |
8574 | parametrizations of Nolan.") | |
8575 | (license license:gpl2+))) | |
a50abb36 RW |
8576 | |
8577 | (define-public r-gsl | |
8578 | (package | |
8579 | (name "r-gsl") | |
8580 | (version "1.9-10.3") | |
8581 | (source | |
8582 | (origin | |
8583 | (method url-fetch) | |
8584 | (uri (cran-uri "gsl" version)) | |
8585 | (sha256 | |
8586 | (base32 | |
8587 | "00isw2iha5af4s7rr8svqka9mkl9l26l8h2rnk4r7fkhh7fc97sg")))) | |
8588 | (build-system r-build-system) | |
8589 | (inputs | |
8590 | `(("gsl" ,gsl))) | |
8591 | (home-page "https://cran.r-project.org/web/packages/gsl") | |
8592 | (synopsis "Wrapper for the GNU Scientific Library") | |
8593 | (description | |
8594 | "This package provides an R wrapper for the special functions and quasi | |
8595 | random number generators of the GNU Scientific Library.") | |
8596 | (license license:gpl2+))) | |
03a3ec5e RW |
8597 | |
8598 | (define-public r-adgoftest | |
8599 | (package | |
8600 | (name "r-adgoftest") | |
8601 | (version "0.3") | |
8602 | (source | |
8603 | (origin | |
8604 | (method url-fetch) | |
8605 | (uri (cran-uri "ADGofTest" version)) | |
8606 | (sha256 | |
8607 | (base32 | |
8608 | "0ik817qzqp6kfbckjp1z7srlma0w6z2zcwykh0jdiv7nahwk3ncw")))) | |
8609 | (properties `((upstream-name . "ADGofTest"))) | |
8610 | (build-system r-build-system) | |
8611 | (home-page "https://cran.r-project.org/web/packages/ADGofTest") | |
8612 | (synopsis "Anderson-Darling GoF test") | |
8613 | (description | |
8614 | "This package provides an implementation of the Anderson-Darling GoF test | |
8615 | with p-value calculation based on Marsaglia's 2004 paper \"Evaluating the | |
8616 | Anderson-Darling Distribution\".") | |
8617 | ;; Any version of the GPL. | |
8618 | (license license:gpl3+))) | |
71601a5d RW |
8619 | |
8620 | (define-public r-softimpute | |
8621 | (package | |
8622 | (name "r-softimpute") | |
8623 | (version "1.4") | |
8624 | (source | |
8625 | (origin | |
8626 | (method url-fetch) | |
8627 | (uri (cran-uri "softImpute" version)) | |
8628 | (sha256 | |
8629 | (base32 | |
8630 | "07cxbzkl08q58m1455i139952rmryjlic4s2f2hscl5zxxmfdxcq")))) | |
8631 | (properties `((upstream-name . "softImpute"))) | |
8632 | (build-system r-build-system) | |
8633 | (propagated-inputs | |
8634 | `(("r-matrix" ,r-matrix))) | |
8635 | (native-inputs | |
8636 | `(("gfortran" ,gfortran))) | |
8637 | (home-page "https://cran.r-project.org/web/packages/softImpute") | |
8638 | (synopsis "Matrix completion via iterative soft-thresholded SVD") | |
8639 | (description | |
8640 | "This package provides iterative methods for matrix completion that use | |
8641 | nuclear-norm regularization. The package includes procedures for centering | |
8642 | and scaling rows, columns or both, and for computing low-rank @dfn{single | |
8643 | value decompositions} (SVDs) on large sparse centered matrices (i.e. principal | |
8644 | components).") | |
8645 | (license license:gpl2))) | |
44b0c5b5 RW |
8646 | |
8647 | (define-public r-fftwtools | |
8648 | (package | |
8649 | (name "r-fftwtools") | |
8650 | (version "0.9-8") | |
8651 | (source | |
8652 | (origin | |
8653 | (method url-fetch) | |
8654 | (uri (cran-uri "fftwtools" version)) | |
8655 | (sha256 | |
8656 | (base32 | |
8657 | "1nqvpzda281rxi1cmwajxxsn3sc3gz7scv8bvs5jm34kf36whha6")))) | |
8658 | (build-system r-build-system) | |
8659 | (inputs `(("fftw" ,fftw))) | |
8660 | (home-page "https://github.com/krahim/fftwtools") | |
8661 | (synopsis "Wrapper for FFTW3") | |
8662 | (description | |
8663 | "This package provides a wrapper for several FFTW functions. It provides | |
8664 | access to the two-dimensional FFT, the multivariate FFT, and the | |
8665 | one-dimensional real to complex FFT using the FFTW3 library. The package | |
8666 | includes the functions @code{fftw()} and @code{mvfftw()} which are designed to | |
8667 | mimic the functionality of the R functions @code{fft()} and @code{mvfft()}. | |
8668 | The FFT functions have a parameter that allows them to not return the | |
8669 | redundant complex conjugate when the input is real data.") | |
8670 | (license license:gpl2+))) | |
db084d79 RW |
8671 | |
8672 | (define-public r-tiff | |
8673 | (package | |
8674 | (name "r-tiff") | |
8675 | (version "0.1-5") | |
8676 | (source | |
8677 | (origin | |
8678 | (method url-fetch) | |
8679 | (uri (cran-uri "tiff" version)) | |
8680 | (sha256 | |
8681 | (base32 | |
8682 | "0asf2bws3x3yd3g3ixvk0f86b0mdf882pl8xrqlxrkbgjalyc54m")))) | |
8683 | (build-system r-build-system) | |
8684 | (inputs | |
8685 | `(("libtiff" ,libtiff) | |
8686 | ("libjpeg" ,libjpeg) | |
8687 | ("zlib" ,zlib))) | |
8688 | (home-page "http://www.rforge.net/tiff/") | |
8689 | (synopsis "Read and write TIFF images") | |
8690 | (description | |
8691 | "This package provides an easy and simple way to read, write and display | |
8692 | bitmap images stored in the TIFF format. It can read and write both files and | |
8693 | in-memory raw vectors.") | |
8694 | ;; Either of these two license versions. | |
8695 | (license (list license:gpl2 license:gpl3)))) | |
f3949fec RW |
8696 | |
8697 | (define-public r-waveslim | |
8698 | (package | |
8699 | (name "r-waveslim") | |
8700 | (version "1.7.5") | |
8701 | (source | |
8702 | (origin | |
8703 | (method url-fetch) | |
8704 | (uri (cran-uri "waveslim" version)) | |
8705 | (sha256 | |
8706 | (base32 | |
8707 | "0lqslkihgrd7rbihqhhk57m9vkbnfsznkvk8430cvbcsn7vridii")))) | |
8708 | (build-system r-build-system) | |
8709 | (native-inputs | |
8710 | `(("gfortran" ,gfortran))) | |
8711 | (home-page "http://waveslim.blogspot.com") | |
8712 | (synopsis "Basic wavelet routines for signal processing") | |
8713 | (description | |
8714 | "This package provides basic wavelet routines for time series (1D), | |
8715 | image (2D) and array (3D) analysis. The code provided here is based on | |
8716 | wavelet methodology developed in Percival and Walden (2000); Gencay, Selcuk | |
8717 | and Whitcher (2001); the dual-tree complex wavelet transform (DTCWT) from | |
8718 | Kingsbury (1999, 2001) as implemented by Selesnick; and Hilbert wavelet | |
8719 | pairs (Selesnick 2001, 2002).") | |
8720 | (license license:bsd-3))) | |
e37935e4 RW |
8721 | |
8722 | (define-public r-wordcloud | |
8723 | (package | |
8724 | (name "r-wordcloud") | |
8725 | (version "2.6") | |
8726 | (source | |
8727 | (origin | |
8728 | (method url-fetch) | |
8729 | (uri (cran-uri "wordcloud" version)) | |
8730 | (sha256 | |
8731 | (base32 | |
8732 | "0j96yyvm6bcrrpbdx4w26piqx44a0vbsr3px9cb4zk8a8da6jwak")))) | |
8733 | (build-system r-build-system) | |
8734 | (propagated-inputs | |
8735 | `(("r-rcolorbrewer" ,r-rcolorbrewer) | |
8736 | ("r-rcpp" ,r-rcpp))) | |
8737 | (home-page "https://cran.r-project.org/web/packages/wordcloud") | |
8738 | (synopsis "Word clouds") | |
8739 | (description | |
8740 | "This package provides functionality to create pretty word clouds, | |
8741 | visualize differences and similarity between documents, and avoid | |
8742 | over-plotting in scatter plots with text.") | |
8743 | (license license:lgpl2.1))) | |
a6e4413d RW |
8744 | |
8745 | (define-public r-colorramps | |
8746 | (package | |
8747 | (name "r-colorramps") | |
8748 | (version "2.3") | |
8749 | (source | |
8750 | (origin | |
8751 | (method url-fetch) | |
8752 | (uri (cran-uri "colorRamps" version)) | |
8753 | (sha256 | |
8754 | (base32 | |
8755 | "0shbjh83x1axv4drm5r3dwgbyv70idih8z4wlzjs4hiac2qfl41z")))) | |
8756 | (properties `((upstream-name . "colorRamps"))) | |
8757 | (build-system r-build-system) | |
8758 | (home-page "https://cran.r-project.org/web/packages/colorRamps") | |
8759 | (synopsis "Build color tables") | |
8760 | (description "This package provides features to build gradient color | |
8761 | maps.") | |
8762 | ;; Any version of the GPL | |
8763 | (license license:gpl3+))) | |
61d73349 RW |
8764 | |
8765 | (define-public r-tidytree | |
8766 | (package | |
8767 | (name "r-tidytree") | |
8768 | (version "0.2.1") | |
8769 | (source | |
8770 | (origin | |
8771 | (method url-fetch) | |
8772 | (uri (cran-uri "tidytree" version)) | |
8773 | (sha256 | |
8774 | (base32 | |
8775 | "1sx69wvlp7k761cmglrzq2jxkm2iq27x6bhhdcisj62wryj96wb2")))) | |
8776 | (build-system r-build-system) | |
8777 | (propagated-inputs | |
8778 | `(("r-ape" ,r-ape) | |
8779 | ("r-dplyr" ,r-dplyr) | |
8780 | ("r-lazyeval" ,r-lazyeval) | |
8781 | ("r-magrittr" ,r-magrittr) | |
8782 | ("r-rlang" ,r-rlang) | |
8783 | ("r-tibble" ,r-tibble))) | |
8784 | (home-page "https://github.com/GuangchuangYu/tidytree") | |
8785 | (synopsis "Tidy tool for phylogenetic tree data manipulation") | |
8786 | (description | |
8787 | "Phylogenetic trees generally contain multiple components including nodes, | |
8788 | edges, branches and associated data. This package provides an approach to | |
8789 | convert tree objects to tidy data frames. It also provides tidy interfaces to | |
8790 | manipulate tree data.") | |
8791 | (license license:artistic2.0))) | |
45b469a4 RW |
8792 | |
8793 | (define-public r-rvcheck | |
8794 | (package | |
8795 | (name "r-rvcheck") | |
8796 | (version "0.1.3") | |
8797 | (source | |
8798 | (origin | |
8799 | (method url-fetch) | |
8800 | (uri (cran-uri "rvcheck" version)) | |
8801 | (sha256 | |
8802 | (base32 | |
8803 | "1i2g6gyiqyd1pn6y0h6vmlcmg1qb5pv7rym8mkw8jnyc3in9hn8b")))) | |
8804 | (build-system r-build-system) | |
8805 | (propagated-inputs | |
8806 | `(("r-rlang" ,r-rlang))) | |
8807 | (home-page "https://cran.r-project.org/web/packages/rvcheck") | |
8808 | (synopsis "R package version check") | |
8809 | (description | |
8810 | "This package provides tools to check the latest release version of R and | |
8811 | R packages (on CRAN, Bioconductor or Github).") | |
8812 | (license license:artistic2.0))) | |
fbebccf7 RW |
8813 | |
8814 | (define-public r-docopt | |
8815 | (package | |
8816 | (name "r-docopt") | |
8817 | (version "0.6.1") | |
8818 | (source | |
8819 | (origin | |
8820 | (method url-fetch) | |
8821 | (uri (cran-uri "docopt" version)) | |
8822 | (sha256 | |
8823 | (base32 | |
8824 | "06zknnd0c5s2y0hbddzdlr3m63ib783izpck6pgz7sjbab5pd068")))) | |
8825 | (build-system r-build-system) | |
8826 | (home-page "https://github.com/docopt/docopt.R") | |
8827 | (synopsis "Command-line interface specification language") | |
8828 | (description | |
8829 | "This package enables you to define a command-line interface by just | |
8830 | giving it a description in the specific format.") | |
8831 | (license license:expat))) | |
b614009e RW |
8832 | |
8833 | (define-public r-sparsesvd | |
8834 | (package | |
8835 | (name "r-sparsesvd") | |
8836 | (version "0.1-4") | |
8837 | (source | |
8838 | (origin | |
8839 | (method url-fetch) | |
8840 | (uri (cran-uri "sparsesvd" version)) | |
8841 | (sha256 | |
8842 | (base32 | |
8843 | "1yf373552wvdnd65r7hfcqa3v29dqn7jd4cn431mqd2acnqjrsam")))) | |
8844 | (build-system r-build-system) | |
8845 | (propagated-inputs `(("r-matrix" ,r-matrix))) | |
8846 | (home-page "http://tedlab.mit.edu/~dr/SVDLIBC/") | |
8847 | (synopsis "Sparse truncated singular value decomposition") | |
8848 | (description | |
8849 | "This package provides a Wrapper around the SVDLIBC library | |
8850 | for (truncated) singular value decomposition of a sparse matrix. Currently, | |
8851 | only sparse real matrices in Matrix package format are supported.") | |
8852 | ;; SVDLIBC is released under BSD-2. The R interface is released under | |
8853 | ;; BSD-3. | |
8854 | (license (list license:bsd-3 license:bsd-2)))) | |
13f5837b RW |
8855 | |
8856 | (define-public r-densityclust | |
8857 | (package | |
8858 | (name "r-densityclust") | |
8859 | (version "0.3") | |
8860 | (source | |
8861 | (origin | |
8862 | (method url-fetch) | |
8863 | (uri (cran-uri "densityClust" version)) | |
8864 | (sha256 | |
8865 | (base32 | |
8866 | "1zry0vafajzmr37aylglxfvwplhdygbkb9cvzvh8cy0xgnjrnx13")))) | |
8867 | (properties `((upstream-name . "densityClust"))) | |
8868 | (build-system r-build-system) | |
8869 | (propagated-inputs | |
8870 | `(("r-fnn" ,r-fnn) | |
8871 | ("r-ggplot2" ,r-ggplot2) | |
8872 | ("r-ggrepel" ,r-ggrepel) | |
8873 | ("r-gridextra" ,r-gridextra) | |
8874 | ("r-rcolorbrewer" ,r-rcolorbrewer) | |
8875 | ("r-rcpp" ,r-rcpp) | |
8876 | ("r-rtsne" ,r-rtsne))) | |
8877 | (home-page "https://cran.r-project.org/web/packages/densityClust") | |
8878 | (synopsis "Clustering by fast search and find of density peaks") | |
8879 | (description | |
8880 | "This package provides an improved implementation (based on k-nearest | |
8881 | neighbors) of the density peak clustering algorithm, originally described by | |
8882 | Alex Rodriguez and Alessandro Laio (Science, 2014 vol. 344). It can handle | |
8883 | large datasets (> 100,000 samples) very efficiently.") | |
8884 | (license license:gpl2+))) | |
58bc8857 RW |
8885 | |
8886 | (define-public r-combinat | |
8887 | (package | |
8888 | (name "r-combinat") | |
8889 | (version "0.0-8") | |
8890 | (source | |
8891 | (origin | |
8892 | (method url-fetch) | |
8893 | (uri (cran-uri "combinat" version)) | |
8894 | (sha256 | |
8895 | (base32 | |
8896 | "1h9hr88gigihc4na7lb5i7rn4az1xa7sb34zvnznaj6pdrmwy4qm")))) | |
8897 | (build-system r-build-system) | |
8898 | (home-page "https://cran.r-project.org/web/packages/combinat") | |
8899 | (synopsis "Combinatorics utilities") | |
8900 | (description "This package provides assorted routines for combinatorics.") | |
8901 | (license license:gpl2))) | |
9f33d76c RW |
8902 | |
8903 | (define-public r-qlcmatrix | |
8904 | (package | |
8905 | (name "r-qlcmatrix") | |
8906 | (version "0.9.7") | |
8907 | (source | |
8908 | (origin | |
8909 | (method url-fetch) | |
8910 | (uri (cran-uri "qlcMatrix" version)) | |
8911 | (sha256 | |
8912 | (base32 | |
8913 | "0iqkcvvy8rxlk0s83sjq57dd6fadb18p5z31lzy0gnzv1hsy1x8y")))) | |
8914 | (properties `((upstream-name . "qlcMatrix"))) | |
8915 | (build-system r-build-system) | |
8916 | (propagated-inputs | |
8917 | `(("r-docopt" ,r-docopt) | |
8918 | ("r-matrix" ,r-matrix) | |
8919 | ("r-slam" ,r-slam) | |
8920 | ("r-sparsesvd" ,r-sparsesvd))) | |
8921 | (home-page "https://cran.r-project.org/web/packages/qlcMatrix") | |
8922 | (synopsis "Sparse matrix functions for quantitative language comparison") | |
8923 | (description | |
8924 | "This package provides an extension of the functionality of the Matrix | |
8925 | package for using sparse matrices. Some of the functions are very general, | |
8926 | while other are highly specific for the special data format used for | |
8927 | @dfn{quantitative language comparison} (QLC).") | |
8928 | (license license:gpl3))) | |
e3bb0766 RW |
8929 | |
8930 | (define-public r-ddrtree | |
8931 | (package | |
8932 | (name "r-ddrtree") | |
8933 | (version "0.1.5") | |
8934 | (source | |
8935 | (origin | |
8936 | (method url-fetch) | |
8937 | (uri (cran-uri "DDRTree" version)) | |
8938 | (sha256 | |
8939 | (base32 | |
8940 | "16s5fjw7kwlxhrkzdny62sx32fvmg3rxjc3wrh6krd31jh1fqlfk")))) | |
8941 | (properties `((upstream-name . "DDRTree"))) | |
8942 | (build-system r-build-system) | |
8943 | (propagated-inputs | |
8944 | `(("r-bh" ,r-bh) | |
8945 | ("r-irlba" ,r-irlba) | |
8946 | ("r-rcpp" ,r-rcpp) | |
8947 | ("r-rcppeigen" ,r-rcppeigen))) | |
8948 | (home-page "https://cran.r-project.org/web/packages/DDRTree") | |
8949 | (synopsis "Learning principal graphs with DDRTree") | |
8950 | (description | |
8951 | "This package provides an implementation of the framework of | |
8952 | @dfn{reversed graph embedding} (RGE) which projects data into a reduced | |
8953 | dimensional space while constructs a principal tree which passes through the | |
8954 | middle of the data simultaneously. DDRTree shows superiority to | |
8955 | alternatives (Wishbone, DPT) for inferring the ordering as well as the | |
8956 | intrinsic structure of single cell genomics data. In general, it could be | |
8957 | used to reconstruct the temporal progression as well as the bifurcation | |
8958 | structure of any data type.") | |
8959 | (license license:asl2.0))) | |
d53b2317 RW |
8960 | |
8961 | (define-public r-corpcor | |
8962 | (package | |
8963 | (name "r-corpcor") | |
8964 | (version "1.6.9") | |
8965 | (source | |
8966 | (origin | |
8967 | (method url-fetch) | |
8968 | (uri (cran-uri "corpcor" version)) | |
8969 | (sha256 | |
8970 | (base32 | |
8971 | "1hi3i9d3841snppq1ks5pd8cliq1b4rm4dpsczmfqvwksg8snkrf")))) | |
8972 | (build-system r-build-system) | |
8973 | (home-page "http://strimmerlab.org/software/corpcor/") | |
8974 | (synopsis "Efficient estimation of covariance and (partial) correlation") | |
8975 | (description | |
8976 | "This package implements a James-Stein-type shrinkage estimator for the | |
8977 | covariance matrix, with separate shrinkage for variances and correlations. | |
8978 | Furthermore, functions are available for fast singular value decomposition, | |
8979 | for computing the pseudoinverse, and for checking the rank and positive | |
8980 | definiteness of a matrix.") | |
8981 | (license license:gpl3+))) | |
3088b3fc RW |
8982 | |
8983 | (define-public r-rspectra | |
8984 | (package | |
8985 | (name "r-rspectra") | |
8986 | (version "0.13-1") | |
8987 | (source | |
8988 | (origin | |
8989 | (method url-fetch) | |
8990 | (uri (cran-uri "RSpectra" version)) | |
8991 | (sha256 | |
8992 | (base32 | |
8993 | "1sw80chwyyjzf5px278l6xmp94yhwrlj5xh8d3wlw3dnvdkycca7")))) | |
8994 | (properties `((upstream-name . "RSpectra"))) | |
8995 | (build-system r-build-system) | |
8996 | (propagated-inputs | |
8997 | `(("r-matrix" ,r-matrix) | |
8998 | ("r-rcpp" ,r-rcpp) | |
8999 | ("r-rcppeigen" ,r-rcppeigen))) | |
9000 | (home-page "https://github.com/yixuan/RSpectra") | |
9001 | (synopsis "Solvers for large-scale Eigenvalue and SVD problems") | |
9002 | (description | |
9003 | "This package provides an R interface to the Spectra library for | |
9004 | large-scale eigenvalue and SVD problems. It is typically used to compute a | |
9005 | few eigenvalues/vectors of an n by n matrix, e.g., the k largest eigenvalues, | |
9006 | which is usually more efficient than @code{eigen()} if k << n.") | |
9007 | ;; MPL 2 or later. | |
9008 | (license license:mpl2.0))) | |
029425cb RW |
9009 | |
9010 | (define-public r-vbsr | |
9011 | (package | |
9012 | (name "r-vbsr") | |
9013 | (version "0.0.5") | |
9014 | (source | |
9015 | (origin | |
9016 | (method url-fetch) | |
9017 | (uri (cran-uri "vbsr" version)) | |
9018 | (sha256 | |
9019 | (base32 | |
9020 | "1avskbxxyinjjdga4rnghcfvd4sypv4m39ysfaij5avvmi89bx3b")))) | |
9021 | (build-system r-build-system) | |
9022 | (home-page "https://cran.r-project.org/web/packages/vbsr") | |
9023 | (synopsis "Variational Bayes spike regression regularized linear models") | |
9024 | (description | |
9025 | "This package provides an efficient algorithm for solving ultra-sparse | |
9026 | regularized regression models using a variational Bayes algorithm with a spike | |
9027 | prior. The algorithm is solved on a path, with coordinate updates, and is | |
9028 | capable of generating very sparse models. Very general model | |
9029 | diagnostics for controlling type-1 errors are also provided.") | |
9030 | (license license:gpl2))) | |
3d62d98e RW |
9031 | |
9032 | (define-public r-flare | |
9033 | (package | |
9034 | (name "r-flare") | |
9035 | (version "1.6.0") | |
9036 | (source | |
9037 | (origin | |
9038 | (method url-fetch) | |
9039 | (uri (cran-uri "flare" version)) | |
9040 | (sha256 | |
9041 | (base32 | |
9042 | "0ygif9a7a99qwv0b488wymmmncp6f5ww9yz13s4qs6p8yf37x1r1")))) | |
9043 | (build-system r-build-system) | |
9044 | (propagated-inputs | |
9045 | `(("r-igraph" ,r-igraph) | |
9046 | ("r-lattice" ,r-lattice) | |
9047 | ("r-mass" ,r-mass) | |
9048 | ("r-matrix" ,r-matrix))) | |
9049 | (home-page "https://cran.r-project.org/web/packages/flare") | |
9050 | (synopsis "Family of Lasso regression implementations") | |
9051 | (description | |
9052 | "This packages provides implementations of a family of Lasso variants | |
9053 | including Dantzig Selector, LAD Lasso, SQRT Lasso, Lq Lasso for estimating | |
9054 | high dimensional sparse linear models.") | |
9055 | (license license:gpl2))) | |
5f0fbfc0 RW |
9056 | |
9057 | (define-public r-lassopv | |
9058 | (package | |
9059 | (name "r-lassopv") | |
9060 | (version "0.2.0") | |
9061 | (source | |
9062 | (origin | |
9063 | (method url-fetch) | |
9064 | (uri (cran-uri "lassopv" version)) | |
9065 | (sha256 | |
9066 | (base32 | |
9067 | "0yawnjw063jypk3riy9xab9cmliv6c9dnabi18670khd3gzb2r9z")))) | |
9068 | (build-system r-build-system) | |
9069 | (propagated-inputs `(("r-lars" ,r-lars))) | |
9070 | (home-page "https://github.com/lingfeiwang/lassopv") | |
9071 | (synopsis "Non-parametric p-value estimation for predictors in Lasso") | |
9072 | (description | |
9073 | "This package enables you to estimate the p-values for predictors x | |
9074 | against target variable y in Lasso regression, using the regularization | |
9075 | strength when each predictor enters the active set of regularization path for | |
9076 | the first time as the statistic.") | |
9077 | (license license:gpl3))) | |
adcd0cc8 RW |
9078 | |
9079 | (define-public r-splitstackshape | |
9080 | (package | |
9081 | (name "r-splitstackshape") | |
9082 | (version "1.4.6") | |
9083 | (source | |
9084 | (origin | |
9085 | (method url-fetch) | |
9086 | (uri (cran-uri "splitstackshape" version)) | |
9087 | (sha256 | |
9088 | (base32 | |
9089 | "03w6h64ga4zqilffdway4l38l5cbman4yrspkzhbigds12aqz25r")))) | |
9090 | (build-system r-build-system) | |
9091 | (propagated-inputs | |
9092 | `(("r-data-table" ,r-data-table))) | |
9093 | (home-page "https://github.com/mrdwab/splitstackshape") | |
9094 | (synopsis "Stack and reshape datasets after splitting concatenated values") | |
9095 | (description | |
9096 | "Online data collection tools like Google Forms often export | |
9097 | multiple-response questions with data concatenated in cells. The | |
9098 | @code{concat.split} (cSplit) family of functions provided by this package | |
9099 | splits such data into separate cells. This package also includes functions to | |
9100 | stack groups of columns and to reshape wide data, even when the data are | |
9101 | \"unbalanced\"---something which @code{reshape} (from base R) does not handle, | |
9102 | and which @code{melt} and @code{dcast} from @code{reshape2} do not easily | |
9103 | handle.") | |
9104 | (license license:gpl3))) | |
b2e777b2 RW |
9105 | |
9106 | (define-public r-tfmpvalue | |
9107 | (package | |
9108 | (name "r-tfmpvalue") | |
9109 | (version "0.0.8") | |
9110 | (source | |
9111 | (origin | |
9112 | (method url-fetch) | |
9113 | (uri (cran-uri "TFMPvalue" version)) | |
9114 | (sha256 | |
9115 | (base32 | |
9116 | "0h9qkl15k8v17v3g9bdnfwvh2s04ywjgg5y0xn2077dmywlja1bd")))) | |
9117 | (properties `((upstream-name . "TFMPvalue"))) | |
9118 | (build-system r-build-system) | |
9119 | (propagated-inputs `(("r-rcpp" ,r-rcpp))) | |
9120 | (home-page "https://github.com/ge11232002/TFMPvalue") | |
9121 | (synopsis "P-value computation for position weight matrices") | |
9122 | (description | |
9123 | "In putative @dfn{Transcription Factor Binding Sites} (TFBSs) | |
9124 | identification from sequence/alignments, we are interested in the significance | |
9125 | of certain match scores. TFMPvalue provides the accurate calculation of a | |
9126 | p-value with a score threshold for position weight matrices, or the score with | |
9127 | a given p-value. It is an interface to code originally made available by | |
9128 | Helene Touzet and Jean-Stephane Varre, 2007, Algorithms Mol Biol:2, 15. | |
9129 | Touzet and Varre (2007).") | |
9130 | (license license:gpl2))) | |
f79e63a5 RW |
9131 | |
9132 | (define-public r-rnifti | |
9133 | (package | |
9134 | (name "r-rnifti") | |
9135 | (version "0.10.0") | |
9136 | (source | |
9137 | (origin | |
9138 | (method url-fetch) | |
9139 | (uri (cran-uri "RNifti" version)) | |
9140 | (sha256 | |
9141 | (base32 | |
9142 | "07sfzps4yg5zdhbxh6i4rbjvbjvvf2d8i9jcf64ywbmi557sw1zv")))) | |
9143 | (properties `((upstream-name . "RNifti"))) | |
9144 | (build-system r-build-system) | |
9145 | (propagated-inputs `(("r-rcpp" ,r-rcpp))) | |
9146 | (home-page "https://github.com/jonclayden/RNifti") | |
9147 | (synopsis "Fast R and C++ access to NIfTI images") | |
9148 | (description | |
9149 | "This package provides very fast read and write access to images stored | |
9150 | in the NIfTI-1 and ANALYZE-7.5 formats, with seamless synchronisation between | |
9151 | compiled C and interpreted R code. It also provides a C/C++ API that can be | |
9152 | used by other packages.") | |
9153 | (license license:gpl2))) | |
6e09f506 RW |
9154 | |
9155 | (define-public r-shades | |
9156 | (package | |
9157 | (name "r-shades") | |
16d296bb | 9158 | (version "1.3.1") |
6e09f506 RW |
9159 | (source |
9160 | (origin | |
9161 | (method url-fetch) | |
9162 | (uri (cran-uri "shades" version)) | |
9163 | (sha256 | |
9164 | (base32 | |
16d296bb | 9165 | "0v0xp9l1zyq4iysmkrbdwk4r1rksjj8p5c1726yrcgyg55mj59nv")))) |
6e09f506 RW |
9166 | (build-system r-build-system) |
9167 | (home-page "https://github.com/jonclayden/shades") | |
9168 | (synopsis "Simple color manipulation") | |
9169 | (description | |
9170 | "This package provides functions for easily manipulating colors, | |
9171 | creating color scales and calculating color distances.") | |
9172 | (license license:bsd-3))) | |
cb03d6c6 RW |
9173 | |
9174 | (define-public r-ore | |
9175 | (package | |
9176 | (name "r-ore") | |
9177 | (version "1.6.2") | |
9178 | (source | |
9179 | (origin | |
9180 | (method url-fetch) | |
9181 | (uri (cran-uri "ore" version)) | |
9182 | (sha256 | |
9183 | (base32 | |
9184 | "1l1ziljgm5gwjhvjq42wi5vcwbxlaj5dl9w8bhz0wh8vx4ajj07m")))) | |
9185 | (build-system r-build-system) | |
9186 | (home-page "https://github.com/jonclayden/ore") | |
9187 | (synopsis "R interface to the Onigmo regular expression library") | |
9188 | (description | |
9189 | "This package provides an alternative to R's built-in functionality for | |
9190 | handling regular expressions, based on the Onigmo library. It offers | |
9191 | first-class compiled regex objects, partial matching and function-based | |
9192 | substitutions, amongst other features.") | |
9193 | (license license:bsd-3))) | |
b98662c5 RW |
9194 | |
9195 | (define-public r-reportr | |
9196 | (package | |
9197 | (name "r-reportr") | |
9198 | (version "1.3.0") | |
9199 | (source | |
9200 | (origin | |
9201 | (method url-fetch) | |
9202 | (uri (cran-uri "reportr" version)) | |
9203 | (sha256 | |
9204 | (base32 | |
9205 | "0zynplxqvbmf23cm2rsz3wz2jx6mv55z94mn1k44ny3lx625cnpw")))) | |
9206 | (build-system r-build-system) | |
9207 | (propagated-inputs `(("r-ore" ,r-ore))) | |
9208 | (home-page "https://github.com/jonclayden/reportr") | |
9209 | (synopsis "General message and error reporting system") | |
9210 | (description | |
9211 | "This package provides a system for reporting messages, which offers | |
9212 | certain useful features over the standard R system, such as the incorporation | |
9213 | of output consolidation, message filtering, assertions, expression | |
9214 | substitution, automatic generation of stack traces for debugging, and | |
9215 | conditional reporting based on the current \"output level\".") | |
9216 | (license license:gpl2))) | |
7eec973e RW |
9217 | |
9218 | (define-public r-tractor-base | |
9219 | (package | |
9220 | (name "r-tractor-base") | |
9221 | (version "3.3.0") | |
9222 | (source | |
9223 | (origin | |
9224 | (method url-fetch) | |
9225 | (uri (cran-uri "tractor.base" version)) | |
9226 | (sha256 | |
9227 | (base32 | |
9228 | "0i62dwra0yh565ryz75byfgqv22bqwz7138zs48w46yj2h8q9hyj")))) | |
9229 | (properties `((upstream-name . "tractor.base"))) | |
9230 | (build-system r-build-system) | |
9231 | (propagated-inputs | |
9232 | `(("r-ore" ,r-ore) | |
9233 | ("r-reportr" ,r-reportr) | |
9234 | ("r-rnifti" ,r-rnifti) | |
9235 | ("r-shades" ,r-shades))) | |
9236 | (home-page "http://www.tractor-mri.org.uk") | |
9237 | (synopsis "Read, manipulate and visualize magnetic resonance images") | |
9238 | (description | |
9239 | "This package provides functions for working with magnetic resonance | |
9240 | images. It supports reading and writing of popular file formats (DICOM, | |
9241 | Analyze, NIfTI-1, NIfTI-2, MGH); interactive and non-interactive | |
9242 | visualization; flexible image manipulation; metadata and sparse image | |
9243 | handling.") | |
9244 | (license license:gpl2))) | |
d0eb09a1 RW |
9245 | |
9246 | (define-public r-grimport | |
9247 | (package | |
9248 | (name "r-grimport") | |
9ad5f4ba | 9249 | (version "0.9-1.1") |
d0eb09a1 RW |
9250 | (source |
9251 | (origin | |
9252 | (method url-fetch) | |
9253 | (uri (cran-uri "grImport" version)) | |
9254 | (sha256 | |
9255 | (base32 | |
9ad5f4ba | 9256 | "19d05ygpiv47lfzhfih35pdfll0axbrgd6p86l59mmg2d0j0s8bd")))) |
d0eb09a1 RW |
9257 | (properties `((upstream-name . "grImport"))) |
9258 | (build-system r-build-system) | |
9259 | (inputs | |
9260 | `(("ghostscript" ,ghostscript))) | |
9261 | (propagated-inputs | |
9262 | `(("r-xml" ,r-xml))) | |
9263 | (home-page "https://cran.r-project.org/web/packages/grImport") | |
9264 | (synopsis "Convert, import, and draw PostScript pictures") | |
9265 | (description | |
9266 | "This package provides functions for converting, importing, and drawing | |
9267 | PostScript pictures in R plots.") | |
9268 | (license license:gpl2+))) | |
2871b670 RW |
9269 | |
9270 | (define-public r-kohonen | |
9271 | (package | |
9272 | (name "r-kohonen") | |
9273 | (version "3.0.8") | |
9274 | (source | |
9275 | (origin | |
9276 | (method url-fetch) | |
9277 | (uri (cran-uri "kohonen" version)) | |
9278 | (sha256 | |
9279 | (base32 | |
9280 | "1zbfqa1qdlry8w6xhypkiknc5gn98v1ijhlsfka8zjg8ajhqgn1q")))) | |
9281 | (build-system r-build-system) | |
9282 | (propagated-inputs | |
9283 | `(("r-mass" ,r-mass) | |
9284 | ("r-rcpp" ,r-rcpp))) | |
9285 | (home-page "https://cran.r-project.org/web/packages/kohonen") | |
9286 | (synopsis "Supervised and unsupervised self-organising maps") | |
9287 | (description | |
9288 | "This package provides functions to train @dfn{self-organising | |
9289 | maps} (SOMs). Also interrogation of the maps and prediction using trained | |
9290 | maps are supported. The name of the package refers to Teuvo Kohonen, the | |
9291 | inventor of the SOM.") | |
9292 | (license license:gpl2+))) | |
00436e2c RW |
9293 | |
9294 | (define-public r-nnls | |
9295 | (package | |
9296 | (name "r-nnls") | |
9297 | (version "1.4") | |
9298 | (source | |
9299 | (origin | |
9300 | (method url-fetch) | |
9301 | (uri (cran-uri "nnls" version)) | |
9302 | (sha256 | |
9303 | (base32 | |
9304 | "07vcrrxvswrvfiha6f3ikn640yg0m2b4yd9lkmim1g0jmsmpfp8f")))) | |
9305 | (build-system r-build-system) | |
9306 | (native-inputs `(("gfortran" ,gfortran))) | |
9307 | (home-page "https://cran.r-project.org/web/packages/nnls") | |
9308 | (synopsis "Lawson-Hanson algorithm for non-negative least squares") | |
9309 | (description | |
9310 | "This package provides an R interface to the Lawson-Hanson implementation | |
9311 | of an algorithm for @dfn{non-negative least squares} (NNLS). It also allows | |
9312 | the combination of non-negative and non-positive constraints.") | |
9313 | (license license:gpl2+))) | |
25861356 RW |
9314 | |
9315 | (define-public r-iso | |
9316 | (package | |
9317 | (name "r-iso") | |
9318 | (version "0.0-17") | |
9319 | (source | |
9320 | (origin | |
9321 | (method url-fetch) | |
9322 | (uri (cran-uri "Iso" version)) | |
9323 | (sha256 | |
9324 | (base32 | |
9325 | "0lljc99sdzdqj6d56qbsggibr6pkdwkh821bj70ianikyvmdc1y0")))) | |
9326 | (properties `((upstream-name . "Iso"))) | |
9327 | (build-system r-build-system) | |
9328 | (native-inputs `(("gfortran" ,gfortran))) | |
9329 | (home-page "http://www.stat.auckland.ac.nz/~rolf/") | |
9330 | (synopsis "Functions to perform isotonic regression") | |
9331 | (description | |
9332 | "This package provides support for linear order and unimodal | |
9333 | order (univariate) isotonic regression and bivariate isotonic regression with | |
9334 | linear order on both variables.") | |
9335 | (license license:gpl2+))) | |
9401f56b RW |
9336 | |
9337 | (define-public r-chemometricswithr | |
9338 | (package | |
9339 | (name "r-chemometricswithr") | |
e0417402 | 9340 | (version "0.1.13") |
9401f56b RW |
9341 | (source |
9342 | (origin | |
9343 | (method url-fetch) | |
9344 | (uri (cran-uri "ChemometricsWithR" version)) | |
9345 | (sha256 | |
9346 | (base32 | |
e0417402 | 9347 | "166va1g3m1wv21qkmw4wpz0bsrclh3jih8smxphdc13l9pqgclpq")))) |
9401f56b RW |
9348 | (properties |
9349 | `((upstream-name . "ChemometricsWithR"))) | |
9350 | (build-system r-build-system) | |
9351 | (propagated-inputs | |
9352 | `(("r-devtools" ,r-devtools) | |
9353 | ("r-kohonen" ,r-kohonen) | |
9354 | ("r-mass" ,r-mass) | |
9355 | ("r-pls" ,r-pls))) | |
9356 | (home-page "https://github.com/rwehrens/CWR") | |
9357 | (synopsis "Chemometrics with R") | |
9358 | (description | |
9359 | "This package provides functions and scripts used in the book | |
9360 | \"Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and | |
9361 | Life Sciences\" by Ron Wehrens, Springer (2011).") | |
9362 | (license license:gpl2+))) | |
d28be7b7 RW |
9363 | |
9364 | (define-public r-als | |
9365 | (package | |
9366 | (name "r-als") | |
9367 | (version "0.0.6") | |
9368 | (source | |
9369 | (origin | |
9370 | (method url-fetch) | |
9371 | (uri (cran-uri "ALS" version)) | |
9372 | (sha256 | |
9373 | (base32 | |
9374 | "1swrn39vy50fazkpf97r7c542gkj6mlvy8gmcxllg7mf2mqx546a")))) | |
9375 | (properties `((upstream-name . "ALS"))) | |
9376 | (build-system r-build-system) | |
9377 | (propagated-inputs | |
9378 | `(("r-iso" ,r-iso) | |
9379 | ("r-nnls" ,r-nnls))) | |
9380 | (home-page "https://cran.r-project.org/web/packages/ALS") | |
9381 | (synopsis "Multivariate curve resolution alternating least squares") | |
9382 | (description | |
9383 | "Alternating least squares is often used to resolve components | |
9384 | contributing to data with a bilinear structure; the basic technique may be | |
9385 | extended to alternating constrained least squares. This package provides an | |
9386 | implementation of @dfn{multivariate curve resolution alternating least | |
9387 | squares} (MCR-ALS). | |
9388 | ||
9389 | Commonly applied constraints include unimodality, non-negativity, and | |
9390 | normalization of components. Several data matrices may be decomposed | |
9391 | simultaneously by assuming that one of the two matrices in the bilinear | |
9392 | decomposition is shared between datasets.") | |
9393 | (license license:gpl2+))) | |
895efece RW |
9394 | |
9395 | (define-public r-strucchange | |
9396 | (package | |
9397 | (name "r-strucchange") | |
9398 | (version "1.5-1") | |
9399 | (source | |
9400 | (origin | |
9401 | (method url-fetch) | |
9402 | (uri (cran-uri "strucchange" version)) | |
9403 | (sha256 | |
9404 | (base32 | |
9405 | "0cdgvl6kphm2i59bmnppn1y3kv65ml111bk7yzpcx7vv8wh2w3kl")))) | |
9406 | (build-system r-build-system) | |
9407 | (propagated-inputs | |
9408 | `(("r-sandwich" ,r-sandwich) | |
9409 | ("r-zoo" ,r-zoo))) | |
9410 | (home-page "https://cran.r-project.org/web/packages/strucchange") | |
9411 | (synopsis "Testing, monitoring, and dating structural changes") | |
9412 | (description | |
9413 | "This package provides tools for testing, monitoring and dating | |
9414 | structural changes in (linear) regression models. It features tests/methods | |
9415 | from the generalized fluctuation test framework as well as from the F | |
9416 | test (Chow test) framework. This includes methods to fit, plot and test | |
9417 | fluctuation processes (e.g., CUSUM, MOSUM, recursive/moving estimates) and F | |
9418 | statistics, respectively. It is possible to monitor incoming data online | |
9419 | using fluctuation processes. Finally, the breakpoints in regression models | |
9420 | with structural changes can be estimated together with confidence intervals. | |
9421 | Emphasis is always given to methods for visualizing the data.") | |
9422 | ;; Either of these two GPL versions | |
9423 | (license (list license:gpl2 license:gpl3)))) | |
e7176ac5 RW |
9424 | |
9425 | (define-public r-pixmap | |
9426 | (package | |
9427 | (name "r-pixmap") | |
9428 | (version "0.4-11") | |
9429 | (source | |
9430 | (origin | |
9431 | (method url-fetch) | |
9432 | (uri (cran-uri "pixmap" version)) | |
9433 | (sha256 | |
9434 | (base32 | |
9435 | "04klxp6jndw1bp6z40v20fbmdmdpfca2g0czmmmgbkark9s1183g")))) | |
9436 | (build-system r-build-system) | |
9437 | (home-page "https://cran.r-project.org/web/packages/pixmap") | |
9438 | (synopsis "Tools for bitmap images") | |
9439 | (description | |
9440 | "This package provides functions for importing, exporting, plotting and | |
9441 | other manipulations of bitmapped images.") | |
9442 | (license license:gpl2))) | |
9170eb7f RW |
9443 | |
9444 | (define-public r-rapidjsonr | |
9445 | (package | |
9446 | (name "r-rapidjsonr") | |
9447 | (version "1.1") | |
9448 | (source | |
9449 | (origin | |
9450 | (method url-fetch) | |
9451 | (uri (cran-uri "rapidjsonr" version)) | |
9452 | (sha256 | |
9453 | (base32 | |
9454 | "0h4phjjhykbb45rg5b1xn48vqxdcvcngbm0416ds8in7j469wbwd")))) | |
9455 | (build-system r-build-system) | |
9456 | (home-page "https://cran.r-project.org/web/packages/rapidjsonr") | |
9457 | (synopsis "JSON parser") | |
9458 | (description | |
9459 | "This package provides JSON parsing capability through the Rapidjson | |
9460 | library.") | |
9461 | (license license:expat))) | |
ad6fea16 RW |
9462 | |
9463 | (define-public r-ontologyindex | |
9464 | (package | |
9465 | (name "r-ontologyindex") | |
209e504b | 9466 | (version "2.5") |
ad6fea16 RW |
9467 | (source |
9468 | (origin | |
9469 | (method url-fetch) | |
9470 | (uri (cran-uri "ontologyIndex" version)) | |
9471 | (sha256 | |
9472 | (base32 | |
209e504b | 9473 | "127hlf0z5fmbgnq4p9h8nvn6p72d2fpcn846zzb99s213421jnry")))) |
ad6fea16 RW |
9474 | (properties `((upstream-name . "ontologyIndex"))) |
9475 | (build-system r-build-system) | |
9476 | (home-page "https://cran.r-project.org/web/packages/ontologyIndex") | |
9477 | (synopsis "Functions for processing ontologies in R") | |
9478 | (description | |
9479 | "This package provides functions for reading ontologies into R as lists | |
9480 | and manipulating sets of ontological terms.") | |
9481 | (license license:gpl2+))) | |
dfd09f7b RW |
9482 | |
9483 | (define-public r-bigrquery | |
9484 | (package | |
9485 | (name "r-bigrquery") | |
9486 | (version "1.0.0") | |
9487 | (source | |
9488 | (origin | |
9489 | (method url-fetch) | |
9490 | (uri (cran-uri "bigrquery" version)) | |
9491 | (sha256 | |
9492 | (base32 | |
9493 | "0z7wsqxla1pg2454l35kkfaz2s9hppwvpz1pds286ddldbbmyzis")))) | |
9494 | (build-system r-build-system) | |
9495 | (propagated-inputs | |
9496 | `(("r-assertthat" ,r-assertthat) | |
9497 | ("r-curl" ,r-curl) | |
9498 | ("r-dbi" ,r-dbi) | |
9499 | ("r-glue" ,r-glue) | |
9500 | ("r-httr" ,r-httr) | |
9501 | ("r-jsonlite" ,r-jsonlite) | |
9502 | ("r-prettyunits" ,r-prettyunits) | |
9503 | ("r-progress" ,r-progress) | |
9504 | ("r-rapidjsonr" ,r-rapidjsonr) | |
9505 | ("r-rcpp" ,r-rcpp) | |
9506 | ("r-tibble" ,r-tibble))) | |
9507 | (home-page "https://github.com/rstats-db/bigrquery") | |
9508 | (synopsis "R interface to Google's BigQuery API") | |
9509 | (description | |
9510 | "This package provides an R interface to Google's BigQuery database.") | |
9511 | (license license:gpl3))) | |
1ab51604 RW |
9512 | |
9513 | (define-public r-gmp | |
9514 | (package | |
9515 | (name "r-gmp") | |
9516 | (version "0.5-13.2") | |
9517 | (source | |
9518 | (origin | |
9519 | (method url-fetch) | |
9520 | (uri (cran-uri "gmp" version)) | |
9521 | (sha256 | |
9522 | (base32 | |
9523 | "1xd6jjra4niqv1kps91y348lwgvy73p2faxaia4gfzdnrpw7wsxf")))) | |
9524 | (build-system r-build-system) | |
9525 | (arguments | |
9526 | '(#:phases | |
9527 | (modify-phases %standard-phases | |
9528 | (add-after 'unpack 'set-CC | |
9529 | (lambda _ (setenv "CC" "gcc") #t))))) | |
9530 | (inputs `(("gmp" ,gmp))) | |
9531 | (home-page "https://cran.r-project.org/web/packages/gmp") | |
9532 | (synopsis "Multiple precision arithmetic") | |
9533 | (description | |
9534 | "This package supports multiple precision arithmetic (big integers and | |
9535 | rationals, prime number tests, matrix computation), \"arithmetic without | |
9536 | limitations\" using the GNU Multiple Precision library.") | |
9537 | ;; Any version of the GPL. | |
9538 | (license license:gpl3+))) | |
a536c7c9 RW |
9539 | |
9540 | (define-public r-rmpfr | |
9541 | (package | |
9542 | (name "r-rmpfr") | |
9543 | (version "0.7-1") | |
9544 | (source | |
9545 | (origin | |
9546 | (method url-fetch) | |
9547 | (uri (cran-uri "Rmpfr" version)) | |
9548 | (sha256 | |
9549 | (base32 | |
9550 | "0172px5ryi7i0gyyin9z2bzif8vnj292gk0s1w5p3c12g9hj2c4v")))) | |
9551 | (properties `((upstream-name . "Rmpfr"))) | |
9552 | (build-system r-build-system) | |
9553 | (inputs | |
9554 | `(("mpfr" ,mpfr))) | |
9555 | (propagated-inputs | |
9556 | `(("r-gmp" ,r-gmp))) | |
9557 | (home-page "http://rmpfr.r-forge.r-project.org/") | |
9558 | (synopsis "R bindings to the MPFR library") | |
9559 | (description | |
9560 | "This package supports arithmetic (via S4 classes and methods) for | |
9561 | arbitrary precision floating point numbers, including transcendental | |
9562 | functions. To this end, the package interfaces with the @dfn{Multiple | |
9563 | Precision Floating-Point Reliable} (MPFR) library.") | |
9564 | (license license:gpl2+))) | |
8004bb24 RW |
9565 | |
9566 | (define-public r-assertive-base | |
9567 | (package | |
9568 | (name "r-assertive-base") | |
9569 | (version "0.0-7") | |
9570 | (source | |
9571 | (origin | |
9572 | (method url-fetch) | |
9573 | (uri (cran-uri "assertive.base" version)) | |
9574 | (sha256 | |
9575 | (base32 | |
9576 | "1xs3ysvj0z57c58jw57pckq2rynia6ks4rmjmc02alczhk54wbgh")))) | |
9577 | (properties | |
9578 | `((upstream-name . "assertive.base"))) | |
9579 | (build-system r-build-system) | |
9580 | (home-page "https://bitbucket.org/richierocks/assertive.base") | |
9581 | (synopsis "Core of the assertive package") | |
9582 | (description | |
9583 | "This package provides a minimal set of predicates and assertions used by | |
9584 | the assertive package. This is mainly for use by other package developers who | |
9585 | want to include run-time testing features in their own packages.") | |
9586 | (license license:gpl3+))) | |
4b2d17ed RW |
9587 | |
9588 | (define-public r-assertive-properties | |
9589 | (package | |
9590 | (name "r-assertive-properties") | |
9591 | (version "0.0-4") | |
9592 | (source | |
9593 | (origin | |
9594 | (method url-fetch) | |
9595 | (uri (cran-uri "assertive.properties" version)) | |
9596 | (sha256 | |
9597 | (base32 | |
9598 | "0sqs54acs9qk9kvm32rxzfbzxz1l8mjahpfnw7r30z2brgz661jw")))) | |
9599 | (properties | |
9600 | `((upstream-name . "assertive.properties"))) | |
9601 | (build-system r-build-system) | |
9602 | (propagated-inputs | |
9603 | `(("r-assertive-base" ,r-assertive-base))) | |
9604 | (home-page "https://bitbucket.org/richierocks/assertive.properties") | |
9605 | (synopsis "Assertions to check properties of variables") | |
9606 | (description | |
9607 | "This package provides a set of predicates and assertions for checking | |
9608 | the properties of variables, such as length, names and attributes. This is | |
9609 | mainly for use by other package developers who want to include run-time | |
9610 | testing features in their own packages.") | |
9611 | (license license:gpl3+))) | |
dac9c1f6 RW |
9612 | |
9613 | (define-public r-assertive-numbers | |
9614 | (package | |
9615 | (name "r-assertive-numbers") | |
9616 | (version "0.0-2") | |
9617 | (source | |
9618 | (origin | |
9619 | (method url-fetch) | |
9620 | (uri (cran-uri "assertive.numbers" version)) | |
9621 | (sha256 | |
9622 | (base32 | |
9623 | "0jc3ss64j4m7bjydhagwwmka5n7c72vpw4kfcch0m5jvkq5qrqds")))) | |
9624 | (properties | |
9625 | `((upstream-name . "assertive.numbers"))) | |
9626 | (build-system r-build-system) | |
9627 | (propagated-inputs | |
9628 | `(("r-assertive-base" ,r-assertive-base))) | |
9629 | (home-page "https://bitbucket.org/richierocks/assertive.numbers") | |
9630 | (synopsis "Assertions to check properties of numbers") | |
9631 | (description | |
9632 | "This package provides a set of predicates and assertions for checking | |
9633 | the properties of numbers. This is mainly for use by other package developers | |
9634 | who want to include run-time testing features in their own packages.") | |
9635 | (license license:gpl3+))) | |
2da2d2f6 RW |
9636 | |
9637 | (define-public r-assertive-sets | |
9638 | (package | |
9639 | (name "r-assertive-sets") | |
9640 | (version "0.0-3") | |
9641 | (source | |
9642 | (origin | |
9643 | (method url-fetch) | |
9644 | (uri (cran-uri "assertive.sets" version)) | |
9645 | (sha256 | |
9646 | (base32 | |
9647 | "1cqvh2syvh5b6d85h601zjmsdbbf3h8q98ids4dfl4frdshpasc7")))) | |
9648 | (properties | |
9649 | `((upstream-name . "assertive.sets"))) | |
9650 | (build-system r-build-system) | |
9651 | (propagated-inputs | |
9652 | `(("r-assertive-base" ,r-assertive-base))) | |
9653 | (home-page "https://bitbucket.org/richierocks/assertive.sets") | |
9654 | (synopsis "Assertions to check properties of sets") | |
9655 | (description | |
9656 | "This package provides a set of predicates and assertions for checking | |
9657 | the properties of sets. This is mainly for use by other package developers | |
9658 | who want to include run-time testing features in their own packages.") | |
9659 | (license license:gpl3+))) | |
905aa46a RW |
9660 | |
9661 | (define-public r-assertive-matrices | |
9662 | (package | |
9663 | (name "r-assertive-matrices") | |
9664 | (version "0.0-2") | |
9665 | (source | |
9666 | (origin | |
9667 | (method url-fetch) | |
9668 | (uri (cran-uri "assertive.matrices" version)) | |
9669 | (sha256 | |
9670 | (base32 | |
9671 | "16sykzcndv6y2d43x6v9n7m95kv76364h39kh10w4z0xw6ksfqil")))) | |
9672 | (properties | |
9673 | `((upstream-name . "assertive.matrices"))) | |
9674 | (build-system r-build-system) | |
9675 | (propagated-inputs | |
9676 | `(("r-assertive-base" ,r-assertive-base))) | |
9677 | (home-page "https://bitbucket.org/richierocks/assertive.matrices") | |
9678 | (synopsis "Assertions to check properties of matrices") | |
9679 | (description | |
9680 | "This package provides a set of predicates and assertions for checking | |
9681 | the properties of matrices. This is mainly for use by other package | |
9682 | developers who want to include run-time testing features in their own | |
9683 | packages.") | |
9684 | (license license:gpl3+))) | |
c358b5d4 RW |
9685 | |
9686 | (define-public r-assertive-models | |
9687 | (package | |
9688 | (name "r-assertive-models") | |
9689 | (version "0.0-2") | |
9690 | (source | |
9691 | (origin | |
9692 | (method url-fetch) | |
9693 | (uri (cran-uri "assertive.models" version)) | |
9694 | (sha256 | |
9695 | (base32 | |
9696 | "0bn4j4v5qvb2d672cgri61p8d9v258pmz35y3lvm6b9mdxwdi9mr")))) | |
9697 | (properties | |
9698 | `((upstream-name . "assertive.models"))) | |
9699 | (build-system r-build-system) | |
9700 | (propagated-inputs | |
9701 | `(("r-assertive-base" ,r-assertive-base))) | |
9702 | (home-page "https://bitbucket.org/richierocks/assertive.models") | |
9703 | (synopsis "Assertions to check properties of models") | |
9704 | (description | |
9705 | "This package provides a set of predicates and assertions for checking | |
9706 | the properties of models. This is mainly for use by other package developers | |
9707 | who want to include run-time testing features in their own packages.") | |
9708 | (license license:gpl3+))) | |
dcafcfb4 RW |
9709 | |
9710 | (define-public r-assertive-reflection | |
9711 | (package | |
9712 | (name "r-assertive-reflection") | |
9713 | (version "0.0-4") | |
9714 | (source | |
9715 | (origin | |
9716 | (method url-fetch) | |
9717 | (uri (cran-uri "assertive.reflection" version)) | |
9718 | (sha256 | |
9719 | (base32 | |
9720 | "19zmsbn00crfqm0kwd9ys5gv87xs3gi6wmlikrz9xiwzm7hp4dhj")))) | |
9721 | (properties | |
9722 | `((upstream-name . "assertive.reflection"))) | |
9723 | (build-system r-build-system) | |
9724 | (propagated-inputs | |
9725 | `(("r-assertive-base" ,r-assertive-base))) | |
9726 | (home-page "https://bitbucket.org/richierocks/assertive.reflection") | |
9727 | (synopsis "Assertions for checking the state of R") | |
9728 | (description | |
9729 | "This package provides a set of predicates and assertions for checking | |
9730 | the state and capabilities of R, the operating system it is running on, and | |
9731 | the IDE being used. This is mainly for use by other package developers who | |
9732 | want to include run-time testing features in their own packages.") | |
9733 | (license license:gpl3+))) | |
5e3bd355 RW |
9734 | |
9735 | (define-public r-assertive-types | |
9736 | (package | |
9737 | (name "r-assertive-types") | |
9738 | (version "0.0-3") | |
9739 | (source | |
9740 | (origin | |
9741 | (method url-fetch) | |
9742 | (uri (cran-uri "assertive.types" version)) | |
9743 | (sha256 | |
9744 | (base32 | |
9745 | "0zxq1jfrzgw95ll7alvm0xnk7aihjdksngq4ya2whyvfjbmv4vdb")))) | |
9746 | (properties | |
9747 | `((upstream-name . "assertive.types"))) | |
9748 | (build-system r-build-system) | |
9749 | (propagated-inputs | |
9750 | `(("r-assertive-base" ,r-assertive-base) | |
9751 | ("r-assertive-properties" ,r-assertive-properties) | |
9752 | ("r-codetools" ,r-codetools))) | |
9753 | (home-page "https://bitbucket.org/richierocks/assertive.types") | |
9754 | (synopsis "Assertions to check types of variables") | |
9755 | (description | |
9756 | "This package provides a set of predicates and assertions for checking | |
9757 | the types of variables. This is mainly for use by other package developers | |
9758 | who want to include run-time testing features in their own packages.") | |
9759 | (license license:gpl3+))) | |
1f0a761a RW |
9760 | |
9761 | (define-public r-assertive-files | |
9762 | (package | |
9763 | (name "r-assertive-files") | |
9764 | (version "0.0-2") | |
9765 | (source | |
9766 | (origin | |
9767 | (method url-fetch) | |
9768 | (uri (cran-uri "assertive.files" version)) | |
9769 | (sha256 | |
9770 | (base32 | |
9771 | "02pfz8j5vwcj5kl6zca46894li7lxwnlrr29j922f14ay6kdssmy")))) | |
9772 | (properties | |
9773 | `((upstream-name . "assertive.files"))) | |
9774 | (build-system r-build-system) | |
9775 | (propagated-inputs | |
9776 | `(("r-assertive-base" ,r-assertive-base) | |
9777 | ("r-assertive-numbers" ,r-assertive-numbers))) | |
9778 | (home-page "https://bitbucket.org/richierocks/assertive.files") | |
9779 | (synopsis "Assertions to check properties of files") | |
9780 | (description | |
9781 | "This package provides a set of predicates and assertions for checking | |
9782 | the properties of files and connections. This is mainly for use by other | |
9783 | package developers who want to include run-time testing features in their own | |
9784 | packages.") | |
9785 | (license license:gpl3+))) | |
50ce8b1e RW |
9786 | |
9787 | (define-public r-assertive-code | |
9788 | (package | |
9789 | (name "r-assertive-code") | |
9790 | (version "0.0-3") | |
9791 | (source | |
9792 | (origin | |
9793 | (method url-fetch) | |
9794 | (uri (cran-uri "assertive.code" version)) | |
9795 | (sha256 | |
9796 | (base32 | |
9797 | "1qhbp668zfvhqs8avkhg9amp4zyazz6dsy4fc6kpdmw3sv8yi07g")))) | |
9798 | (properties | |
9799 | `((upstream-name . "assertive.code"))) | |
9800 | (build-system r-build-system) | |
9801 | (propagated-inputs | |
9802 | `(("r-assertive-base" ,r-assertive-base) | |
9803 | ("r-assertive-properties" ,r-assertive-properties) | |
9804 | ("r-assertive-types" ,r-assertive-types))) | |
9805 | (home-page "https://bitbucket.org/richierocks/assertive.code") | |
9806 | (synopsis "Assertions to check properties of code") | |
9807 | (description | |
9808 | "This package provides a set of predicates and assertions for checking | |
9809 | the properties of code. This is mainly for use by other package developers | |
9810 | who want to include run-time testing features in their own packages.") | |
9811 | (license license:gpl3+))) | |
29d9a2af RW |
9812 | |
9813 | (define-public r-assertive-datetimes | |
9814 | (package | |
9815 | (name "r-assertive-datetimes") | |
9816 | (version "0.0-2") | |
9817 | (source | |
9818 | (origin | |
9819 | (method url-fetch) | |
9820 | (uri (cran-uri "assertive.datetimes" version)) | |
9821 | (sha256 | |
9822 | (base32 | |
9823 | "00a98fx8p3pr3ckayh8wmxmm4rz01s67wah9697m92yci6pv3m78")))) | |
9824 | (properties | |
9825 | `((upstream-name . "assertive.datetimes"))) | |
9826 | (build-system r-build-system) | |
9827 | (propagated-inputs | |
9828 | `(("r-assertive-base" ,r-assertive-base) | |
9829 | ("r-assertive-types" ,r-assertive-types))) | |
9830 | (home-page "https://bitbucket.org/richierocks/assertive.datetimes") | |
9831 | (synopsis "Assertions to check properties of dates and times") | |
9832 | (description | |
9833 | "This package provides a set of predicates and assertions for checking | |
9834 | the properties of dates and times. This is mainly for use by other package | |
9835 | developers who want to include run-time testing features in their own | |
9836 | packages.") | |
9837 | (license license:gpl3+))) | |
66d0a0a7 RW |
9838 | |
9839 | (define-public r-assertive-strings | |
9840 | (package | |
9841 | (name "r-assertive-strings") | |
9842 | (version "0.0-3") | |
9843 | (source | |
9844 | (origin | |
9845 | (method url-fetch) | |
9846 | (uri (cran-uri "assertive.strings" version)) | |
9847 | (sha256 | |
9848 | (base32 | |
9849 | "0n6jrk88670g4ym0r8ii40a08a90z1xadj8wcryk8h0nl04dchfm")))) | |
9850 | (properties | |
9851 | `((upstream-name . "assertive.strings"))) | |
9852 | (build-system r-build-system) | |
9853 | (propagated-inputs | |
9854 | `(("r-assertive-base" ,r-assertive-base) | |
9855 | ("r-assertive-types" ,r-assertive-types) | |
9856 | ("r-stringi" ,r-stringi))) | |
9857 | (home-page "https://bitbucket.org/richierocks/assertive.strings") | |
9858 | (synopsis "Assertions to check properties of strings") | |
9859 | (description | |
9860 | "This package provides a set of predicates and assertions for checking | |
9861 | the properties of strings. This is mainly for use by other package developers | |
9862 | who want to include run-time testing features in their own packages.") | |
9863 | (license license:gpl3+))) | |
6d3702e5 RW |
9864 | |
9865 | (define-public r-assertive-data-us | |
9866 | (package | |
9867 | (name "r-assertive-data-us") | |
9868 | (version "0.0-2") | |
9869 | (source | |
9870 | (origin | |
9871 | (method url-fetch) | |
9872 | (uri (cran-uri "assertive.data.us" version)) | |
9873 | (sha256 | |
9874 | (base32 | |
9875 | "1bgspn0sccmp9z7s7djvdvprgxlyc5vrxznp4zfjb79kwvgn83hq")))) | |
9876 | (properties | |
9877 | `((upstream-name . "assertive.data.us"))) | |
9878 | (build-system r-build-system) | |
9879 | (propagated-inputs | |
9880 | `(("r-assertive-base" ,r-assertive-base) | |
9881 | ("r-assertive-strings" ,r-assertive-strings))) | |
9882 | (home-page "https://bitbucket.org/richierocks/assertive.data.us") | |
9883 | (synopsis "Assertions to check properties of strings") | |
9884 | (description | |
9885 | "This package provides a set of predicates and assertions for checking | |
9886 | the properties of US-specific complex data types. This is mainly for use by | |
9887 | other package developers who want to include run-time testing features in | |
9888 | their own packages.") | |
9889 | (license license:gpl3+))) | |
39ef8e09 RW |
9890 | |
9891 | (define-public r-assertive-data-uk | |
9892 | (package | |
9893 | (name "r-assertive-data-uk") | |
9894 | (version "0.0-2") | |
9895 | (source | |
9896 | (origin | |
9897 | (method url-fetch) | |
9898 | (uri (cran-uri "assertive.data.uk" version)) | |
9899 | (sha256 | |
9900 | (base32 | |
9901 | "1fzjvhwp7mwkqqix29khvs6zcrc82n6j4czvzzb473vyjyvdlj5b")))) | |
9902 | (properties | |
9903 | `((upstream-name . "assertive.data.uk"))) | |
9904 | (build-system r-build-system) | |
9905 | (propagated-inputs | |
9906 | `(("r-assertive-base" ,r-assertive-base) | |
9907 | ("r-assertive-strings" ,r-assertive-strings))) | |
9908 | (home-page "https://bitbucket.org/richierocks/assertive.data.uk") | |
9909 | (synopsis "Assertions to check properties of strings") | |
9910 | (description | |
9911 | "This package provides a set of predicates and assertions for checking | |
9912 | the properties of UK-specific complex data types. This is mainly for use by | |
9913 | other package developers who want to include run-time testing features in | |
9914 | their own packages.") | |
9915 | (license license:gpl3+))) | |
39231abf RW |
9916 | |
9917 | (define-public r-assertive-data | |
9918 | (package | |
9919 | (name "r-assertive-data") | |
9920 | (version "0.0-3") | |
9921 | (source | |
9922 | (origin | |
9923 | (method url-fetch) | |
9924 | (uri (cran-uri "assertive.data" version)) | |
9925 | (sha256 | |
9926 | (base32 | |
9927 | "00cvg2g36mdl8plrzx40m63qd55742mddqrchwy9n3c7mm4gn02s")))) | |
9928 | (properties | |
9929 | `((upstream-name . "assertive.data"))) | |
9930 | (build-system r-build-system) | |
9931 | (propagated-inputs | |
9932 | `(("r-assertive-base" ,r-assertive-base) | |
9933 | ("r-assertive-strings" ,r-assertive-strings))) | |
9934 | (home-page "https://bitbucket.org/richierocks/assertive.data") | |
9935 | (synopsis "Assertions to check properties of data") | |
9936 | (description | |
9937 | "This package provides a set of predicates and assertions for checking | |
9938 | the properties of (country independent) complex data types. This is mainly | |
9939 | for use by other package developers who want to include run-time testing | |
9940 | features in their own packages.") | |
9941 | (license license:gpl3+))) | |
658b2b62 RW |
9942 | |
9943 | (define-public r-assertive | |
9944 | (package | |
9945 | (name "r-assertive") | |
9946 | (version "0.3-5") | |
9947 | (source | |
9948 | (origin | |
9949 | (method url-fetch) | |
9950 | (uri (cran-uri "assertive" version)) | |
9951 | (sha256 | |
9952 | (base32 | |
9953 | "0blbbhlxcb5ffdxqxi62xs33ljiawh6s22a0pyvbbh79jf46rzr3")))) | |
9954 | (build-system r-build-system) | |
9955 | (propagated-inputs | |
9956 | `(("r-assertive-base" ,r-assertive-base) | |
9957 | ("r-assertive-code" ,r-assertive-code) | |
9958 | ("r-assertive-data" ,r-assertive-data) | |
9959 | ("r-assertive-data-uk" ,r-assertive-data-uk) | |
9960 | ("r-assertive-data-us" ,r-assertive-data-us) | |
9961 | ("r-assertive-datetimes" ,r-assertive-datetimes) | |
9962 | ("r-assertive-files" ,r-assertive-files) | |
9963 | ("r-assertive-matrices" ,r-assertive-matrices) | |
9964 | ("r-assertive-models" ,r-assertive-models) | |
9965 | ("r-assertive-numbers" ,r-assertive-numbers) | |
9966 | ("r-assertive-properties" ,r-assertive-properties) | |
9967 | ("r-assertive-reflection" ,r-assertive-reflection) | |
9968 | ("r-assertive-sets" ,r-assertive-sets) | |
9969 | ("r-assertive-strings" ,r-assertive-strings) | |
9970 | ("r-assertive-types" ,r-assertive-types) | |
9971 | ("r-knitr" ,r-knitr))) | |
9972 | (home-page "https://bitbucket.org/richierocks/assertive") | |
9973 | (synopsis "Readable check functions to ensure code integrity") | |
9974 | (description | |
9975 | "This package provides lots of predicates (@code{is_*} functions) to | |
9976 | check the state of your variables, and assertions (@code{assert_*} functions) | |
9977 | to throw errors if they aren't in the right form.") | |
9978 | (license license:gpl3+))) | |
f51dcc27 RW |
9979 | |
9980 | (define-public r-dotcall64 | |
9981 | (package | |
9982 | (name "r-dotcall64") | |
9983 | (version "1.0-0") | |
9984 | (source | |
9985 | (origin | |
9986 | (method url-fetch) | |
9987 | (uri (cran-uri "dotCall64" version)) | |
9988 | (sha256 | |
9989 | (base32 | |
9990 | "1b8p7m3w0m7bp977c6jz74xkd611cxg11j49yza59k5fp338scb9")))) | |
9991 | (properties `((upstream-name . "dotCall64"))) | |
9992 | (build-system r-build-system) | |
9993 | (native-inputs `(("gfortran" ,gfortran))) | |
9994 | (home-page "https://git.math.uzh.ch/reinhard.furrer/dotCall64") | |
9995 | (synopsis "Enhanced foreign function interface supporting long vectors") | |
9996 | (description | |
9997 | "This package provides @code{.C64()}, an enhanced version of @code{.C()} | |
9998 | and @code{.Fortran()} from the R foreign function interface. @code{.C64()} | |
9999 | supports long vectors, arguments of type 64-bit integer, and provides a | |
10000 | mechanism to avoid unnecessary copies of read-only and write-only arguments. | |
10001 | This makes it a convenient and fast interface to C/C++ and Fortran code.") | |
10002 | (license license:gpl2+))) | |
90104ecd RW |
10003 | |
10004 | (define-public r-spam | |
10005 | (package | |
10006 | (name "r-spam") | |
10007 | (version "2.2-1") | |
10008 | (source | |
10009 | (origin | |
10010 | (method url-fetch) | |
10011 | (uri (cran-uri "spam" version)) | |
10012 | (sha256 | |
10013 | (base32 | |
10014 | "04bfwwna013hrbl4k6w1cdiz5bkc83jlasivriyn5l9gkj2qskr2")))) | |
10015 | (build-system r-build-system) | |
10016 | (propagated-inputs | |
10017 | `(("r-dotcall64" ,r-dotcall64))) | |
10018 | (native-inputs `(("gfortran" ,gfortran))) | |
10019 | (home-page "https://www.math.uzh.ch/pages/spam/") | |
10020 | (synopsis "Sparse matrix algebra") | |
10021 | (description | |
10022 | "This package provides a set of functions for sparse matrix algebra. | |
10023 | Differences with other sparse matrix packages are: | |
10024 | ||
10025 | @enumerate | |
10026 | @item it only supports (essentially) one sparse matrix format; | |
10027 | @item it is based on transparent and simple structure(s); | |
10028 | @item it is tailored for MCMC calculations within G(M)RF; | |
10029 | @item and it is fast and scalable (with the extension package @code{spam64}). | |
10030 | @end enumerate\n") | |
10031 | ;; Either of these licenses | |
10032 | (license (list license:bsd-3 license:lgpl2.0)))) | |
32725458 RW |
10033 | |
10034 | (define-public r-fields | |
10035 | (package | |
10036 | (name "r-fields") | |
10037 | (version "9.6") | |
10038 | (source | |
10039 | (origin | |
10040 | (method url-fetch) | |
10041 | (uri (cran-uri "fields" version)) | |
10042 | (sha256 | |
10043 | (base32 | |
10044 | "1v7z48a8jmdcil28rj8c3455k6rssr5v9qi6dyhhpbb193bj8121")))) | |
10045 | (build-system r-build-system) | |
10046 | (propagated-inputs | |
10047 | `(("r-maps" ,r-maps) | |
10048 | ("r-spam" ,r-spam))) | |
10049 | (native-inputs | |
10050 | `(("gfortran" ,gfortran))) | |
10051 | (home-page "http://www.image.ucar.edu/fields") | |
10052 | (synopsis "Tools for spatial data") | |
10053 | (description | |
10054 | "This is a package for curve, surface and function fitting with an | |
10055 | emphasis on splines, spatial data and spatial statistics. The major methods | |
10056 | include cubic, and thin plate splines, Kriging, and compactly supported | |
10057 | covariance functions for large data sets.") | |
10058 | (license license:gpl2+))) | |
99c164a5 RW |
10059 | |
10060 | (define-public r-spatialextremes | |
10061 | (package | |
10062 | (name "r-spatialextremes") | |
10063 | (version "2.0-7") | |
10064 | (source | |
10065 | (origin | |
10066 | (method url-fetch) | |
10067 | (uri (cran-uri "SpatialExtremes" version)) | |
10068 | (sha256 | |
10069 | (base32 | |
10070 | "1y0h1pcfqp9ynxsr3yrfbihlwm25ypyb88jmm5k2g7xvm8h9g050")))) | |
10071 | (properties | |
10072 | `((upstream-name . "SpatialExtremes"))) | |
10073 | (build-system r-build-system) | |
10074 | (propagated-inputs | |
10075 | `(("r-fields" ,r-fields) | |
10076 | ("r-maps" ,r-maps))) | |
10077 | (home-page "http://spatialextremes.r-forge.r-project.org/") | |
10078 | (synopsis "Modelling spatial extremes") | |
10079 | (description | |
10080 | "This package provides tools for the statistical modelling of spatial | |
10081 | extremes using max-stable processes, copula or Bayesian hierarchical models. | |
10082 | More precisely, this package allows (conditional) simulations from various | |
10083 | parametric max-stable models, analysis of the extremal spatial dependence, the | |
10084 | fitting of such processes using composite likelihoods or least square (simple | |
10085 | max-stable processes only), model checking and selection and prediction.") | |
10086 | (license license:gpl2+))) | |
c2d6e866 RW |
10087 | |
10088 | (define-public r-drc | |
10089 | (package | |
10090 | (name "r-drc") | |
10091 | (version "3.0-1") | |
10092 | (source | |
10093 | (origin | |
10094 | (method url-fetch) | |
10095 | (uri (cran-uri "drc" version)) | |
10096 | (sha256 | |
10097 | (base32 | |
10098 | "0c8xn8ripzq270hy8d16fcnx02l02alddznd7fqwk3jyi6113h1y")))) | |
10099 | (build-system r-build-system) | |
10100 | (propagated-inputs | |
10101 | `(("r-car" ,r-car) | |
10102 | ("r-gtools" ,r-gtools) | |
10103 | ("r-mass" ,r-mass) | |
10104 | ("r-multcomp" ,r-multcomp) | |
10105 | ("r-plotrix" ,r-plotrix) | |
10106 | ("r-scales" ,r-scales))) | |
10107 | (home-page "https://cran.r-project.org/web/packages/drc") | |
10108 | (synopsis "Analysis of dose-response curves") | |
10109 | (description | |
10110 | "This package provides a suite of flexible and versatile model fitting | |
10111 | and after-fitting functions for the analysis of dose-response data.") | |
10112 | (license license:gpl2+))) | |
4fcbd7ea RW |
10113 | |
10114 | (define-public r-rmeta | |
10115 | (package | |
10116 | (name "r-rmeta") | |
10117 | (version "3.0") | |
10118 | (source | |
10119 | (origin | |
10120 | (method url-fetch) | |
10121 | (uri (cran-uri "rmeta" version)) | |
10122 | (sha256 | |
10123 | (base32 | |
10124 | "0vkbnxp579v8zmcv1isdbzj5swpr6fq17zwparxcvzswjc2x9ydr")))) | |
10125 | (build-system r-build-system) | |
10126 | (home-page "https://cran.r-project.org/web/packages/rmeta") | |
10127 | (synopsis "Tools for meta-analysis") | |
10128 | (description | |
10129 | "This package provides functions for simple fixed and random effects | |
10130 | meta-analysis for two-sample comparisons and cumulative meta-analyses. It | |
10131 | draws standard summary plots, funnel plots, and computes summaries and tests | |
10132 | for association and heterogeneity.") | |
10133 | (license license:gpl2))) | |
afc0d815 RW |
10134 | |
10135 | (define-public r-bootstrap | |
10136 | (package | |
10137 | (name "r-bootstrap") | |
10138 | (version "2017.2") | |
10139 | (source | |
10140 | (origin | |
10141 | (method url-fetch) | |
10142 | (uri (cran-uri "bootstrap" version)) | |
10143 | (sha256 | |
10144 | (base32 | |
10145 | "08lmsy7k8wsgv89yc904c6fidcymr1ma2ry4fl0p69p21v4iiwa4")))) | |
10146 | (build-system r-build-system) | |
10147 | (native-inputs `(("gfortran" ,gfortran))) | |
10148 | (home-page "https://cran.r-project.org/web/packages/bootstrap") | |
10149 | (synopsis "Functions for the book \"An Introduction to the Bootstrap\"") | |
10150 | (description | |
10151 | "This package provides software and data for the book \"An Introduction | |
10152 | to the Bootstrap\" by B. Efron and R. Tibshirani, 1993, Chapman and Hall. | |
10153 | This package is primarily provided for projects already based on it, and for | |
10154 | support of the book. New projects should preferentially use the recommended | |
10155 | package \"boot\".") | |
10156 | (license license:bsd-3))) | |
1ea708af RW |
10157 | |
10158 | (define-public r-survivalroc | |
10159 | (package | |
10160 | (name "r-survivalroc") | |
10161 | (version "1.0.3") | |
10162 | (source | |
10163 | (origin | |
10164 | (method url-fetch) | |
10165 | (uri (cran-uri "survivalROC" version)) | |
10166 | (sha256 | |
10167 | (base32 | |
10168 | "0wnd65ff5w679hxa1zrpfrx9qg47q21pjxppsga6m3h4iq1yfj8l")))) | |
10169 | (properties `((upstream-name . "survivalROC"))) | |
10170 | (build-system r-build-system) | |
10171 | (home-page "https://cran.r-project.org/web/packages/survivalROC") | |
10172 | (synopsis "Time-dependent ROC curve estimation from censored survival data") | |
10173 | (description | |
10174 | "Compute time-dependent ROC curve from censored survival data using | |
10175 | Kaplan-Meier (KM) or Nearest Neighbor Estimation (NNE) method of Heagerty, | |
10176 | Lumley & Pepe (Biometrics, Vol 56 No 2, 2000, PP 337-344)") | |
10177 | (license license:gpl2+))) | |
6a5bfe09 RW |
10178 | |
10179 | (define-public r-longitudinal | |
10180 | (package | |
10181 | (name "r-longitudinal") | |
10182 | (version "1.1.12") | |
10183 | (source | |
10184 | (origin | |
10185 | (method url-fetch) | |
10186 | (uri (cran-uri "longitudinal" version)) | |
10187 | (sha256 | |
10188 | (base32 | |
10189 | "1d83ws28nxi3kw5lgd5n5y7865djq7ky72fw3ddi1fkkhg1r9y6l")))) | |
10190 | (build-system r-build-system) | |
10191 | (propagated-inputs `(("r-corpcor" ,r-corpcor))) | |
10192 | (home-page "http://strimmerlab.org/software/longitudinal/") | |
10193 | (synopsis "Analysis of multiple time course data") | |
10194 | (description | |
10195 | "This package contains general data structures and functions for | |
10196 | longitudinal data with multiple variables, repeated measurements, and | |
10197 | irregularly spaced time points. It also implements a shrinkage estimator of | |
10198 | dynamical correlation and dynamical covariance.") | |
10199 | (license license:gpl3+))) | |
e50722c8 RW |
10200 | |
10201 | (define-public r-genenet | |
10202 | (package | |
10203 | (name "r-genenet") | |
10204 | (version "1.2.13") | |
10205 | (source | |
10206 | (origin | |
10207 | (method url-fetch) | |
10208 | (uri (cran-uri "GeneNet" version)) | |
10209 | (sha256 | |
10210 | (base32 | |
10211 | "0w52apk0nnr8nsskf26ff7ana8xiksr8wqmkjxzwhzgg7fncm61p")))) | |
10212 | (properties `((upstream-name . "GeneNet"))) | |
10213 | (build-system r-build-system) | |
10214 | (propagated-inputs | |
10215 | `(("r-corpcor" ,r-corpcor) | |
10216 | ("r-fdrtool" ,r-fdrtool) | |
10217 | ("r-longitudinal" ,r-longitudinal))) | |
10218 | (home-page "http://strimmerlab.org/software/genenet/") | |
10219 | (synopsis "Modeling and inferring gene networks") | |
10220 | (description | |
10221 | "This package analyzes gene expression (time series) data with focus on | |
10222 | the inference of gene networks. In particular, GeneNet implements the methods | |
10223 | of Schaefer and Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007) | |
10224 | for learning large-scale gene association networks (including assignment of | |
10225 | putative directions).") | |
10226 | (license license:gpl3+))) | |
fe4e9f03 RW |
10227 | |
10228 | (define-public r-rbamtools | |
10229 | (package | |
10230 | (name "r-rbamtools") | |
10231 | (version "2.16.11.2") | |
10232 | (source | |
10233 | (origin | |
10234 | (method url-fetch) | |
10235 | (uri (cran-uri "rbamtools" version)) | |
10236 | (sha256 | |
10237 | (base32 | |
10238 | "0gzkb1xyrkriv45wq8gv7qfwjslnvwkfkk5jjc4wg5kmm0ydpdzj")))) | |
10239 | (build-system r-build-system) | |
10240 | (inputs `(("zlib" ,zlib))) | |
10241 | (propagated-inputs | |
10242 | `(("r-refgenome" ,r-refgenome))) | |
10243 | (home-page "https://cran.r-project.org/web/packages/rbamtools") | |
10244 | (synopsis "Read and write BAM (binary alignment) files") | |
10245 | (description | |
10246 | "This package provides an R interface to functions of the SAMtools | |
10247 | library.") | |
10248 | (license license:artistic2.0))) | |
e3c0e3e3 RW |
10249 | |
10250 | (define-public r-protviz | |
10251 | (package | |
10252 | (name "r-protviz") | |
c3e5b456 | 10253 | (version "0.4.0") |
e3c0e3e3 RW |
10254 | (source |
10255 | (origin | |
10256 | (method url-fetch) | |
10257 | (uri (cran-uri "protViz" version)) | |
10258 | (sha256 | |
10259 | (base32 | |
c3e5b456 | 10260 | "150i2q4nakz28f39kmhrchz4qsr8ax6y02512md94k8hq4hamxg1")))) |
e3c0e3e3 RW |
10261 | (properties `((upstream-name . "protViz"))) |
10262 | (build-system r-build-system) | |
10263 | (inputs | |
10264 | `(("perl" ,perl) | |
10265 | ("python-2" ,python-2))) | |
10266 | (propagated-inputs `(("r-rcpp" ,r-rcpp))) | |
10267 | (home-page "https://github.com/protViz/protViz/") | |
10268 | (synopsis "Visualizing and analyzing mass spectrometry data in proteomics") | |
10269 | (description | |
10270 | "This package helps with quality checks, visualizations and analysis of | |
10271 | mass spectrometry data, coming from proteomics experiments. The package is | |
10272 | developed, tested and used at the Functional Genomics Center Zurich, where it | |
10273 | is used mainly for prototyping, teaching, and having fun with proteomics data. | |
10274 | But it can also be used to do data analysis for small scale data sets.") | |
10275 | (license license:gpl3))) | |
7aeec0cf RW |
10276 | |
10277 | (define-public r-cmprsk | |
10278 | (package | |
10279 | (name "r-cmprsk") | |
10280 | (version "2.2-7") | |
10281 | (source | |
10282 | (origin | |
10283 | (method url-fetch) | |
10284 | (uri (cran-uri "cmprsk" version)) | |
10285 | (sha256 | |
10286 | (base32 | |
10287 | "1imr3wpnj4g57n2x4ryahl4lk8lvq9y2r7319zv3k82mznha8bcm")))) | |
10288 | (build-system r-build-system) | |
10289 | (propagated-inputs | |
10290 | `(("r-survival" ,r-survival))) | |
10291 | (native-inputs | |
10292 | `(("gfortran" ,gfortran))) | |
10293 | (home-page "https://cran.r-project.org/web/packages/cmprsk") | |
10294 | (synopsis "Subdistribution analysis of competing risks") | |
10295 | (description | |
10296 | "This package provides tool for estimation, testing and regression | |
10297 | modeling of subdistribution functions in competing risks, as described in | |
10298 | Gray (1988), A class of K-sample tests for comparing the cumulative incidence | |
10299 | of a competing risk, Ann. Stat. 16:1141-1154, and Fine JP and Gray RJ (1999), | |
10300 | A proportional hazards model for the subdistribution of a competing risk, | |
10301 | JASA, 94:496-509.") | |
10302 | (license license:gpl2+))) | |
728012da RW |
10303 | |
10304 | (define-public r-etm | |
10305 | (package | |
10306 | (name "r-etm") | |
10307 | (version "1.0.4") | |
10308 | (source | |
10309 | (origin | |
10310 | (method url-fetch) | |
10311 | (uri (cran-uri "etm" version)) | |
10312 | (sha256 | |
10313 | (base32 | |
10314 | "0ws103b3pmli0z4xbyfxkly2wnnnxnnwc0r66qjjqjrlvm7pffl1")))) | |
10315 | (build-system r-build-system) | |
10316 | (propagated-inputs | |
10317 | `(("r-data-table" ,r-data-table) | |
10318 | ("r-lattice" ,r-lattice) | |
10319 | ("r-rcpp" ,r-rcpp) | |
10320 | ("r-rcpparmadillo" ,r-rcpparmadillo) | |
10321 | ("r-survival" ,r-survival))) | |
10322 | (home-page "https://cran.r-project.org/web/packages/etm") | |
10323 | (synopsis "Empirical transition matrix") | |
10324 | (description | |
10325 | "The @dfn{empirical transition matrix} (etm) package permits to estimate | |
10326 | the matrix of transition probabilities for any time-inhomogeneous multistate | |
10327 | model with finite state space using the Aalen-Johansen estimator.") | |
10328 | (license license:expat))) | |
17932a0f RW |
10329 | |
10330 | (define-public r-epi | |
10331 | (package | |
10332 | (name "r-epi") | |
10333 | (version "2.32") | |
10334 | (source | |
10335 | (origin | |
10336 | (method url-fetch) | |
10337 | (uri (cran-uri "Epi" version)) | |
10338 | (sha256 | |
10339 | (base32 | |
10340 | "14n24xlm7pwdc54w2hlpjhfal1zpzm87rv3rjfckiz47d3w7dwqm")))) | |
10341 | (properties `((upstream-name . "Epi"))) | |
10342 | (build-system r-build-system) | |
10343 | (propagated-inputs | |
10344 | `(("r-cmprsk" ,r-cmprsk) | |
10345 | ("r-data-table" ,r-data-table) | |
10346 | ("r-etm" ,r-etm) | |
10347 | ("r-mass" ,r-mass) | |
10348 | ("r-matrix" ,r-matrix) | |
10349 | ("r-mgcv" ,r-mgcv) | |
10350 | ("r-numderiv" ,r-numderiv) | |
10351 | ("r-plyr" ,r-plyr) | |
10352 | ("r-survival" ,r-survival) | |
10353 | ("r-zoo" ,r-zoo))) | |
10354 | (home-page "http://BendixCarstensen.com/Epi/") | |
10355 | (synopsis "Statistical analysis in epidemiology") | |
10356 | (description | |
10357 | "This package provides functions for demographic and epidemiological | |
10358 | analysis in the Lexis diagram, i.e. register and cohort follow-up data, in | |
10359 | particular representation, manipulation and simulation of multistate data - | |
10360 | the Lexis suite of functions, which includes interfaces to the @code{mstate}, | |
10361 | @code{etm} and @code{cmprsk} packages. It also contains functions for | |
10362 | Age-Period-Cohort and Lee-Carter modeling and a function for interval censored | |
10363 | data and some useful functions for tabulation and plotting, as well as a | |
10364 | number of epidemiological data sets.") | |
10365 | (license license:gpl2))) | |
879a1520 RW |
10366 | |
10367 | (define-public r-ppls | |
10368 | (package | |
10369 | (name "r-ppls") | |
10370 | (version "1.6-1.1") | |
10371 | (source | |
10372 | (origin | |
10373 | (method url-fetch) | |
10374 | (uri (cran-uri "ppls" version)) | |
10375 | (sha256 | |
10376 | (base32 | |
10377 | "1zyrisy3c4cz896j1bjh61sf57wdl9p8ywdq268cl819szfq78mx")))) | |
10378 | (build-system r-build-system) | |
10379 | (propagated-inputs `(("r-mass" ,r-mass))) | |
10380 | (home-page "https://cran.r-project.org/web/packages/ppls") | |
10381 | (synopsis "Penalized partial least squares") | |
10382 | (description | |
10383 | "This package contains linear and nonlinear regression methods based on | |
10384 | partial least squares and penalization techniques. Model parameters are | |
10385 | selected via cross-validation, and confidence intervals ans tests for the | |
10386 | regression coefficients can be conducted via jackknifing.") | |
10387 | (license license:gpl2+))) | |
0af9616d RW |
10388 | |
10389 | (define-public r-huge | |
10390 | (package | |
10391 | (name "r-huge") | |
10392 | (version "1.2.7") | |
10393 | (source | |
10394 | (origin | |
10395 | (method url-fetch) | |
10396 | (uri (cran-uri "huge" version)) | |
10397 | (sha256 | |
10398 | (base32 | |
10399 | "134d951x42vy9dcmf155fbvik2934nh6qm2w5jlx3x2c6cf7faq4")))) | |
10400 | (build-system r-build-system) | |
10401 | (propagated-inputs | |
10402 | `(("r-igraph" ,r-igraph) | |
10403 | ("r-lattice" ,r-lattice) | |
10404 | ("r-mass" ,r-mass) | |
10405 | ("r-matrix" ,r-matrix))) | |
10406 | (home-page "https://cran.r-project.org/web/packages/huge") | |
10407 | (synopsis "High-dimensional undirected graph estimation") | |
10408 | (description | |
10409 | "This package provides a general framework for high-dimensional | |
10410 | undirected graph estimation. It integrates data preprocessing, neighborhood | |
10411 | screening, graph estimation, and model selection techniques into a pipeline.") | |
10412 | (license license:gpl2))) | |
39274ab4 RW |
10413 | |
10414 | (define-public r-parcor | |
10415 | (package | |
10416 | (name "r-parcor") | |
10417 | (version "0.2-6") | |
10418 | (source | |
10419 | (origin | |
10420 | (method url-fetch) | |
10421 | (uri (cran-uri "parcor" version)) | |
10422 | (sha256 | |
10423 | (base32 | |
10424 | "0vgs6k92vdr0cmb8cwbv2ff6qavw30agskfd8bfh17hsskrisvx0")))) | |
10425 | (build-system r-build-system) | |
10426 | (propagated-inputs | |
10427 | `(("r-epi" ,r-epi) | |
10428 | ("r-genenet" ,r-genenet) | |
10429 | ("r-glmnet" ,r-glmnet) | |
10430 | ("r-mass" ,r-mass) | |
10431 | ("r-ppls" ,r-ppls))) | |
10432 | (home-page "https://cran.r-project.org/web/packages/parcor") | |
10433 | (synopsis "Regularized estimation of partial correlation matrices") | |
10434 | (description | |
10435 | "This package estimates the matrix of partial correlations based on | |
10436 | different regularized regression methods: lasso, adaptive lasso, PLS, and | |
10437 | Ridge Regression. In addition, the package provides model selection for | |
10438 | lasso, adaptive lasso and Ridge regression based on cross-validation.") | |
10439 | (license license:gpl2+))) | |
cba08f60 RW |
10440 | |
10441 | (define-public r-mcmc | |
10442 | (package | |
10443 | (name "r-mcmc") | |
10444 | (version "0.9-5") | |
10445 | (source | |
10446 | (origin | |
10447 | (method url-fetch) | |
10448 | (uri (cran-uri "mcmc" version)) | |
10449 | (sha256 | |
10450 | (base32 | |
10451 | "1i3rahph8pbhi5dsyjnkazqklg4lhh3azlyvx4kvabx50q0awxn6")))) | |
10452 | (build-system r-build-system) | |
10453 | (home-page "http://www.stat.umn.edu/geyer/mcmc/") | |
10454 | (synopsis "Markov chain Monte Carlo") | |
10455 | (description | |
10456 | "This package simulates continuous distributions of random vectors using | |
10457 | @dfn{Markov chain Monte Carlo} (MCMC). Users specify the distribution by an R | |
10458 | function that evaluates the log unnormalized density. Algorithms are random | |
10459 | walk Metropolis algorithm (function @code{metrop}), simulated | |
10460 | tempering (function @code{temper}), and morphometric random walk | |
10461 | Metropolis (function @code{morph.metrop}), which achieves geometric ergodicity | |
10462 | by change of variable.") | |
10463 | (license license:expat))) |