1 ;;; GNU Guix --- Functional package management for GNU
2 ;;; Copyright © 2015, 2016, 2017, 2018 Ricardo Wurmus <rekado@elephly.net>
3 ;;; Copyright © 2017, 2018 Roel Janssen <roel@gnu.org>
4 ;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr>
5 ;;; Copyright © 2017 Raoul Bonnal <ilpuccio.febo@gmail.com>
6 ;;; Copyright © 2018 Vijayalakshmi Vedantham <vijimay12@gmail.com>
7 ;;; Copyright © 2018 Sahithi Yarlagadda <sahi@swecha.net>
8 ;;; Copyright © 2018 Sandeep Subramanian <sandeepsubramanian94@gmail.com>
9 ;;; Copyright © 2018 Charlie Ritter <chewzeirta@posteo.net>
10 ;;; Copyright © 2018 Konrad Hinsen <konrad.hinsen@fastmail.net>
12 ;;; This file is part of GNU Guix.
14 ;;; GNU Guix is free software; you can redistribute it and/or modify it
15 ;;; under the terms of the GNU General Public License as published by
16 ;;; the Free Software Foundation; either version 3 of the License, or (at
17 ;;; your option) any later version.
19 ;;; GNU Guix is distributed in the hope that it will be useful, but
20 ;;; WITHOUT ANY WARRANTY; without even the implied warranty of
21 ;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
22 ;;; GNU General Public License for more details.
24 ;;; You should have received a copy of the GNU General Public License
25 ;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
27 (define-module (gnu packages cran)
28 #:use-module ((guix licenses) #:prefix license:)
29 #:use-module (guix packages)
30 #:use-module (guix download)
31 #:use-module (guix utils)
32 #:use-module (guix build-system r)
33 #:use-module (gnu packages compression)
34 #:use-module (gnu packages gcc)
35 #:use-module (gnu packages machine-learning)
36 #:use-module (gnu packages maths)
37 #:use-module (gnu packages mpi)
38 #:use-module (gnu packages perl)
39 #:use-module (gnu packages pkg-config)
40 #:use-module (gnu packages python)
41 #:use-module (gnu packages statistics)
42 #:use-module (gnu packages tls)
43 #:use-module (gnu packages web))
45 (define-public r-tidyverse
52 (uri (cran-uri "tidyverse" version))
55 "0yy3fkjksgcn6wkbgsb0pbnmsyqs4m01mziqafhig578nixs4rxd"))))
56 (build-system r-build-system)
58 `(("r-broom" ,r-broom)
60 ("r-crayon" ,r-crayon)
61 ("r-dbplyr" ,r-dbplyr)
63 ("r-forcats" ,r-forcats)
64 ("r-ggplot2" ,r-ggplot2)
68 ("r-jsonlite" ,r-jsonlite)
69 ("r-lubridate" ,r-lubridate)
70 ("r-magrittr" ,r-magrittr)
71 ("r-modelr" ,r-modelr)
74 ("r-readxl" ,r-readxl)
75 ("r-reprex" ,r-reprex)
77 ("r-rstudioapi" ,r-rstudioapi)
79 ("r-stringr" ,r-stringr)
80 ("r-tibble" ,r-tibble)
83 (home-page "https://tidyverse.tidyverse.org")
84 (synopsis "Install and load packages from the \"Tidyverse\"")
86 "The @code{tidyverse} is a set of packages that work in harmony because
87 they share common data representations and API design. This package is
88 designed to make it easy to install and load multiple tidyverse packages in a
90 (license license:gpl3)))
92 (define-public r-rvest
99 (uri (cran-uri "rvest" version))
102 "04mv99z8dixywx96kfy4215g6ib23s7qvd77hcf9pxqxzcvqhvhd"))))
103 (build-system r-build-system)
106 ("r-magrittr" ,r-magrittr)
107 ("r-selectr" ,r-selectr)
109 (home-page "https://github.com/hadley/rvest")
110 (synopsis "Simple web scraping for R")
112 "@code{r-rvest} helps you scrape information from web pages. It is
113 designed to work with @code{magrittr} to make it easy to express common web
114 scraping tasks, inspired by libraries like @code{BeautifulSoup}.")
115 (license license:gpl3)))
117 (define-public r-selectr
124 (uri (cran-uri "selectr" version))
127 "1jp27rxks4w29l47k42869hp8hnkzq2rnvsqbr44wd19fqb2zm4b"))))
128 (build-system r-build-system)
130 `(("r-stringr" ,r-stringr)
132 (home-page "https://sjp.co.nz/projects/selectr/")
133 (synopsis "Translate CSS selectors to XPath expressions")
135 "@code{r-selectr} translates a CSS3 selector into an equivalent XPath
136 expression. This allows you to use CSS selectors when working with the XML
137 package as it can only evaluate XPath expressions. Also provided are
138 convenience functions useful for using CSS selectors on XML nodes. This
139 package is a port of the Python package @code{cssselect}.")
140 (license license:bsd-3)))
142 (define-public r-reprex
149 (uri (cran-uri "reprex" version))
152 "105d9vsmqfilgpw8psfb2wyiz1hvcycvh4cqhb3ab37lm3rcavvs"))))
153 (build-system r-build-system)
155 `(("r-callr" ,r-callr)
157 ("r-rmarkdown" ,r-rmarkdown)
158 ("r-whisker" ,r-whisker)))
159 (home-page "https://github.com/tidyverse/reprex")
160 (synopsis "Prepare reproducible R code examples for sharing")
162 "This package provides a convenience wrapper that uses the
163 @code{rmarkdown} package to render small snippets of code to target formats
164 that include both code and output. The goal is to encourage the sharing of
165 small, reproducible, and runnable examples on code-oriented websites or email.
166 @code{reprex} also extracts clean, runnable R code from various common formats,
167 such as copy/paste from an R session.")
168 (license license:expat)))
170 (define-public r-callr
177 (uri (cran-uri "callr" version))
180 "1053qqq632z94pqq2v5dynjpgyv1b1c8zvidmcllw7zn8zha8gqf"))))
181 (build-system r-build-system)
184 ("r-processx" ,r-processx)))
185 (home-page "https://github.com/r-lib/callr#readme")
186 (synopsis "Call R from R")
188 "It is sometimes useful to perform a computation in a separate R process,
189 without affecting the current R process at all. This packages does exactly
191 (license license:expat)))
193 (define-public r-readxl
200 (uri (cran-uri "readxl" version))
203 "05ii8knrg4jji6h7bv6bfpn279b6x52yrskdx5rv7b0hcpy22gdn"))))
204 (build-system r-build-system)
206 `(("r-cellranger" ,r-cellranger)
208 ("r-tibble" ,r-tibble)))
209 (home-page "https://readxl.tidyverse.org")
210 (synopsis "Read Excel files")
212 "This package lets you import Excel files into R. It supports
213 @file{.xls} via the embedded @code{libxls} C library and @file{.xlsx} via
214 the embedded @code{RapidXML} C++ library.")
215 ;; XXX: This package bundles a copy of 'libxsl' which is BSD-2 and
216 ;; 'rapidxml' which is Boost.
217 (license (list license:gpl3 license:bsd-2 license:boost1.0))))
219 (define-public r-modelr
226 (uri (cran-uri "modelr" version))
229 "09whg3q5xq6csbqwgwfwav09vda8vgady5j70sk52xcn232k363a"))))
230 (build-system r-build-system)
232 `(("r-broom" ,r-broom)
234 ("r-lazyeval" ,r-lazyeval)
235 ("r-magrittr" ,r-magrittr)
237 ("r-tibble" ,r-tibble)
238 ("r-tidyr" ,r-tidyr)))
239 (home-page "https://github.com/tidyverse/modelr")
240 (synopsis "Helper functions for modelling in pipelines")
242 "Functions for modelling that help you seamlessly integrate modelling
243 into a pipeline of data manipulation and visualisation.")
244 (license license:gpl3)))
246 (define-public r-haven
253 (uri (cran-uri "haven" version))
256 "0pp8xjf5lzqg1wr8cwxj4njx99vxwlflwjrd7jvyzwlfpwh7n1qa"))))
257 (build-system r-build-system)
261 `(("r-forcats" ,r-forcats)
265 ("r-tibble" ,r-tibble)))
266 (home-page "https://haven.tidyverse.org")
267 (synopsis "Import and Export 'SPSS', 'Stata' and 'SAS' Files")
269 "This package lets you mport foreign statistical formats into R via the
270 embedded @url{https://github.com/WizardMac/ReadStat,ReadStat} C library.")
271 (license license:expat)))
273 (define-public r-amap
279 (uri (cran-uri "amap" version))
282 "1qnl2x98x64iaipkx5126rsddq2sx5ml43h75xyiyn30yvbmlxyk"))))
283 (build-system r-build-system)
285 `(("gfortran" ,gfortran)))
286 (home-page "http://mulcyber.toulouse.inra.fr/projects/amap/")
287 (synopsis "Another multidimensional analysis package")
288 (description "This package provides tools for clustering and principal
289 component analysis (with robust methods, and parallelized functions).")
290 (license license:gpl2+)))
299 (uri (cran-uri "ape" version))
302 "0vm2065993wf4hdqarxqykhfz9aaj0rrb98alhkq4qw1d2kdrmdp"))))
303 (build-system r-build-system)
305 `(("r-lattice" ,r-lattice)
308 (home-page "http://ape-package.ird.fr/")
309 (synopsis "Analyses of phylogenetics and evolution")
311 "This package provides functions for reading, writing, plotting, and
312 manipulating phylogenetic trees, analyses of comparative data in a
313 phylogenetic framework, ancestral character analyses, analyses of
314 diversification and macroevolution, computing distances from DNA sequences,
315 and several other tools.")
316 (license license:gpl2+)))
318 (define-public r-abbyyr
325 (uri (cran-uri "abbyyR" version))
328 "1jh1c1ad6mgw7brdh2isnza1qpjlfxnqr7jl76yd93axyfl76xjx"))))
329 (properties `((upstream-name . "abbyyR")))
330 (build-system r-build-system)
335 ("r-progress" ,r-progress)
338 (home-page "https://github.com/soodoku/abbyyR")
339 (synopsis "Access to Abbyy Optical Character Recognition (OCR) API")
341 "This package provides tools to get text from images of text using Abbyy
342 Cloud Optical Character Recognition (OCR) API. With abbyyyR, one can easily
343 OCR images, barcodes, forms, documents with machine readable zones, e.g.
344 passports and get the results in a variety of formats including plain text and
345 XML. To learn more about the Abbyy OCR API, see @url{http://ocrsdk.com/}.")
346 (license license:expat)))
348 (define-public r-colorspace
350 (name "r-colorspace")
355 (uri (cran-uri "colorspace" version))
357 (base32 "0d1ya7hx4y58n5ivwmdmq2zgh0g2sbv7ykh13n85c1355csd57yx"))))
358 (build-system r-build-system)
359 (home-page "https://cran.r-project.org/web/packages/colorspace")
360 (synopsis "Color space manipulation")
362 "This package carries out a mapping between assorted color spaces
363 including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB and polar
364 CIELAB. Qualitative, sequential, and diverging color palettes based on HCL
365 colors are provided.")
366 (license license:bsd-3)))
368 (define-public r-glue
375 (uri (cran-uri "glue" version))
378 "0vi9y8ix95g6hjqdz9c9y4119apbdjcypdv0ag8cl6vaxqs5n9qr"))))
379 (build-system r-build-system)
380 (home-page "https://github.com/tidyverse/glue")
381 (synopsis "Interpreted string literals")
383 "This package provides an implementation of interpreted string literals,
384 inspired by Python's Literal String Interpolation (PEP-0498) and
385 Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.")
386 (license license:expat)))
388 (define-public r-pastecs
394 (uri (cran-uri "pastecs" version))
397 "0z4dic94ar646w7zc2ggi5hgvf2qnznsani94c5pyql8zspz47lc"))))
398 (build-system r-build-system)
400 `(("r-boot" ,r-boot)))
401 (home-page "http://www.sciviews.org/pastecs")
402 (synopsis "Analysis of space-time ecological series")
404 "This package provides functions for regulation, decomposition and analysis
405 of space-time series. The @code{pastecs} library is a PNEC-Art4 and IFREMER
406 initiative to bring PASSTEC 2000 functionalities to R.")
407 (license license:gpl2+)))
409 (define-public r-plogr
416 (uri (cran-uri "plogr" version))
419 "0a8dhzlna79ggyhfr0nncgh15a9n6r0dsz664pz0ah323wpblqqf"))))
420 (build-system r-build-system)
421 (home-page "https://github.com/krlmlr/plogr")
422 (synopsis "R bindings for the plog C++ logging library")
424 "This package provides the header files for a stripped-down version of
425 the plog header-only C++ logging library, and a method to log to R's standard
427 (license license:expat)))
436 (uri (cran-uri "pls" version))
439 "15j59p5x0rkdrk7iqzkipsy50rsyjl31w8zxc4w3v1j5gzxhi1rx"))))
440 (build-system r-build-system)
441 (home-page "http://mevik.net/work/software/pls.html")
442 (synopsis "Partial Least Squares and Principal Component Regression")
444 "The pls package implements multivariate regression methods: Partial Least
445 Squares Regression (@dfn{PLSR}), Principal Component Regression (@dfn{PCR}), and
446 Canonical Powered Partial Least Squares (@dfn{CPPLS}). It supports:
449 @item several algorithms: the traditional orthogonal scores (@dfn{NIPALS}) PLS
450 algorithm, kernel PLS, wide kernel PLS, Simpls, and PCR through @code{svd}
451 @item multi-response models (or @dfn{PLS2})
452 @item flexible cross-validation
453 @item Jackknife variance estimates of regression coefficients
454 @item extensive and flexible plots: scores, loadings, predictions, coefficients,
455 (R)MSEP, R², and correlation loadings
456 @item formula interface, modelled after @code{lm()}, with methods for predict,
457 print, summary, plot, update, etc.
458 @item extraction functions for coefficients, scores, and loadings
459 @item MSEP, RMSEP, and R² estimates
460 @item multiplicative scatter correction (@dfn{MSC})
462 (license license:gpl2)))
464 (define-public r-rcpp
471 (uri (cran-uri "Rcpp" version))
473 (base32 "08xg8h3w25sdb3xr18g9pa0x8cirkdgljqapxmw56ss1j9fc89s2"))))
474 (build-system r-build-system)
475 (home-page "http://www.rcpp.org")
476 (synopsis "Seamless R and C++ integration")
478 "The Rcpp package provides R functions as well as C++ classes which offer
479 a seamless integration of R and C++. Many R data types and objects can be
480 mapped back and forth to C++ equivalents which facilitates both writing of new
481 code as well as easier integration of third-party libraries. Documentation
482 about Rcpp is provided by several vignettes included in this package, via the
483 'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel
484 and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
485 'citation(\"Rcpp\")' for details on these last two.")
486 (license license:gpl2+)))
488 (define-public r-bindr
495 (uri (cran-uri "bindr" version))
498 "1l05fpk2yql3jka321c0bdgx6mqq9pvfrg2844lbjfpbgjkmqy3w"))))
499 (build-system r-build-system)
500 (home-page "https://github.com/krlmlr/bindr")
501 (synopsis "Parametrized active bindings")
503 "This package provides a simple interface for creating active bindings
504 where the bound function accepts additional arguments.")
505 (license license:expat)))
507 (define-public r-bindrcpp
514 (uri (cran-uri "bindrcpp" version))
517 "0rz4ibjdjsxl99ff3ha79z7cnjmilx4rx58fk9kk7ld9xc4hf4s8"))))
518 (build-system r-build-system)
520 `(("r-bindr" ,r-bindr)
523 (home-page "https://github.com/krlmlr/bindrcpp")
524 (synopsis "Rcpp interface to active bindings")
526 "This package provides an easy way to fill an environment with active
527 bindings that call a C++ function.")
528 (license license:expat)))
537 (uri (cran-uri "AUC" version))
540 "0ripcib2qz0m7rgr1kiz68nx8f6p408l1ww7j78ljqik7p3g41g7"))))
541 (properties `((upstream-name . "AUC")))
542 (build-system r-build-system)
543 (home-page "https://cran.r-project.org/web/packages/AUC")
544 (synopsis "Compute the area under the curve of selected measures")
546 "This package includes functions to compute the area under the curve of
547 selected measures: the area under the sensitivity curve (AUSEC), the area
548 under the specificity curve (AUSPC), the area under the accuracy
549 curve (AUACC), and the area under the receiver operating characteristic
550 curve (AUROC). The curves can also be visualized. Support for partial areas
552 (license license:gpl2+)))
554 (define-public r-calibrate
561 (uri (cran-uri "calibrate" version))
564 "010nb1nb9y7zhw2k6d2i2drwy5brp7b83mjj2w7i3wjp9xb6l1kq"))))
565 (build-system r-build-system)
567 `(("r-mass" ,r-mass)))
568 (home-page "https://cran.r-project.org/web/packages/calibrate")
569 (synopsis "Calibration of scatterplot and biplot axes")
571 "This is a package for drawing calibrated scales with tick marks
572 on (non-orthogonal) variable vectors in scatterplots and biplots.")
573 (license license:gpl2)))
575 (define-public r-shape
582 (uri (cran-uri "shape" version))
585 "0hadk3mapkhbh8xjkiz52vxdagmmgvm15xwpzb90ikw4giyipjzl"))))
586 (build-system r-build-system)
587 (home-page "https://cran.r-project.org/web/packages/shape")
588 (synopsis "Functions for plotting graphical shapes")
590 "This package provides functions for plotting graphical shapes such as
591 ellipses, circles, cylinders, arrows, ...")
592 (license license:gpl3+)))
594 (define-public r-globaloptions
596 (name "r-globaloptions")
601 (uri (cran-uri "GlobalOptions" version))
604 "1wlyqz1yhmhjwslrd7q69jbd9vsbjkjfc01g60kl3cdpyr8hlyjn"))))
605 (properties `((upstream-name . "GlobalOptions")))
606 (build-system r-build-system)
607 (home-page "https://github.com/jokergoo/GlobalOptions")
608 (synopsis "Generate functions to get or set global options")
610 "This package provides more controls on the option values such as
611 validation and filtering on the values, making options invisible or private.")
612 (license license:gpl2+)))
614 (define-public r-circlize
621 (uri (cran-uri "circlize" version))
624 "1l28maiqi549z191srncxgabx5fnvf0lld7smzwfd3vr5cx8nqww"))))
625 (build-system r-build-system)
627 `(("r-colorspace" ,r-colorspace)
628 ("r-globaloptions" ,r-globaloptions)
629 ("r-shape" ,r-shape)))
630 (home-page "https://github.com/jokergoo/circlize")
631 (synopsis "Circular visualization")
633 "Circular layout is an efficient way to visualise huge amounts of
634 information. This package provides an implementation of circular layout
635 generation in R as well as an enhancement of available software. Its
636 flexibility is based on the usage of low-level graphics functions such that
637 self-defined high-level graphics can be easily implemented by users for
638 specific purposes. Together with the seamless connection between the powerful
639 computational and visual environment in R, it gives users more convenience and
640 freedom to design figures for better understanding complex patterns behind
641 multi-dimensional data.")
642 (license license:gpl2+)))
644 (define-public r-powerlaw
651 (uri (cran-uri "poweRlaw" version))
654 "04sr0nhdd1v915m0zf5gasznzgi08ykcy20kkwdw0l5mvvdbic8m"))))
655 (properties `((upstream-name . "poweRlaw")))
656 (build-system r-build-system)
658 `(("r-vgam" ,r-vgam)))
659 (home-page "https://github.com/csgillespie/poweRlaw")
660 (synopsis "Tools for the analysis of heavy tailed distributions")
662 "This package provides an implementation of maximum likelihood estimators
663 for a variety of heavy tailed distributions, including both the discrete and
664 continuous power law distributions. Additionally, a goodness-of-fit based
665 approach is used to estimate the lower cut-off for the scaling region.")
666 ;; Any of these GPL versions.
667 (license (list license:gpl2 license:gpl3))))
669 (define-public r-compare
676 (uri (cran-uri "compare" version))
679 "0k9zms930b5dz9gy8414li21wy0zg9x9vp7301v5cvyfi0g7xzgw"))))
680 (build-system r-build-system)
681 (home-page "https://cran.r-project.org/web/packages/compare")
682 (synopsis "Comparing objects for differences")
684 "This package provides functions to compare a model object to a
685 comparison object. If the objects are not identical, the functions can be
686 instructed to explore various modifications of the objects (e.g., sorting
687 rows, dropping names) to see if the modified versions are identical.")
688 (license license:gpl2+)))
690 (define-public r-dendextend
692 (name "r-dendextend")
697 (uri (cran-uri "dendextend" version))
700 "1virn3c232xwcq3d0hhkgjh5gpzl01s39iwii5gxcm9mnsxjzdrh"))))
701 (build-system r-build-system)
704 ("r-ggplot2" ,r-ggplot2)
705 ("r-magrittr" ,r-magrittr)
706 ("r-viridis" ,r-viridis)
707 ("r-whisker" ,r-whisker)))
708 (home-page "https://cran.r-project.org/web/packages/dendextend")
709 (synopsis "Extending 'dendrogram' functionality in R")
711 "This package offers a set of functions for extending @code{dendrogram}
712 objects in R, letting you visualize and compare trees of hierarchical
713 clusterings. You can adjust a tree's graphical parameters (the color, size,
714 type, etc of its branches, nodes and labels) and visually and statistically
715 compare different dendrograms to one another.")
716 ;; Any of these versions
717 (license (list license:gpl2 license:gpl3))))
719 (define-public r-getoptlong
721 (name "r-getoptlong")
726 (uri (cran-uri "GetoptLong" version))
729 "1fl3w2n602ldybc5qj7qw4xmzzb804bsjkqwf6dswzj0vf0qiadr"))))
730 (properties `((upstream-name . "GetoptLong")))
731 (build-system r-build-system)
735 `(("r-globaloptions" ,r-globaloptions)
736 ("r-rjson" ,r-rjson)))
737 (home-page "https://github.com/jokergoo/GetoptLong")
738 (synopsis "Parsing command-line arguments and variable interpolation")
740 "This is yet another command-line argument parser which wraps the
741 powerful Perl module @code{Getopt::Long} and with some adaptation for easier
742 use in R. It also provides a simple way for variable interpolation in R.")
743 (license license:gpl2+)))
745 (define-public r-fastmatch
752 (uri (cran-uri "fastmatch" version))
755 "0z80jxkygmzn11sq0c2iz357s9bpki548lg926g85gldhfj1md90"))))
756 (build-system r-build-system)
757 (home-page "http://www.rforge.net/fastmatch")
758 (synopsis "Fast match function")
760 "This package provides a fast @code{match} replacement for cases that
761 require repeated look-ups. It is slightly faster that R's built-in
762 @code{match} function on first match against a table, but extremely fast on
763 any subsequent lookup as it keeps the hash table in memory.")
764 (license license:gpl2)))
773 (uri (cran-uri "ff" version))
776 "1w724q4jpzbvzpilb2ifviaxkjgk9lzwxz9gksnvicbmfa20fqqw"))))
777 (build-system r-build-system)
778 (propagated-inputs `(("r-bit" ,r-bit)))
779 (home-page "http://ff.r-forge.r-project.org/")
780 (synopsis "Memory-efficient storage of large data on disk and access functions")
782 "This package provides data structures that are stored on disk but
783 behave (almost) as if they were in RAM by transparently mapping only a section
785 ;; error Architecture not supported.
786 (supported-systems (delete "aarch64-linux" %supported-systems))
787 (license license:gpl2)))
789 (define-public r-ffbase
796 (uri (cran-uri "ffbase" version))
799 "1nz97bndxxkzp8rq6va8ff5ky9vkaib1jybm6j852awwb3n9had5"))))
800 (build-system r-build-system)
803 ("r-fastmatch" ,r-fastmatch)
805 (home-page "http://github.com/edwindj/ffbase")
806 (synopsis "Basic statistical functions for package 'ff'")
808 "This package extends the out of memory vectors of @code{ff} with
809 statistical functions and other utilities to ease their usage.")
810 (license license:gpl3)))
812 (define-public r-prettyunits
814 (name "r-prettyunits")
819 (uri (cran-uri "prettyunits" version))
822 "0p3z42hnk53x7ky4d1dr2brf7p8gv3agxr71i99m01n2hq2ri91m"))))
823 (build-system r-build-system)
825 `(("r-assertthat" ,r-assertthat)
826 ("r-magrittr" ,r-magrittr)))
827 (home-page "https://github.com/gaborcsardi/prettyunits")
828 (synopsis "Pretty, human readable formatting of quantities")
830 "This package provides tools for pretty, human readable formatting of
832 (license license:expat)))
834 (define-public r-reshape
841 (uri (cran-uri "reshape" version))
844 "14ir3w4bb3bsz8jsak27nj7kpn227pdgr9653gjq5wc93rywi9ig"))))
845 (build-system r-build-system)
849 (home-page "http://had.co.nz/reshape")
850 (synopsis "Flexibly reshape data")
852 "Flexibly restructure and aggregate data using just two functions:
853 @code{melt} and @code{cast}. This package provides them.")
854 (license license:expat)))
856 (define-public r-progress
863 (uri (cran-uri "progress" version))
866 "1rhwm0bdw30z3rvl0bn56xprjl3zrdy7150w4gl4bkvn2d6h9fav"))))
867 (build-system r-build-system)
869 `(("r-crayon" ,r-crayon)
871 ("r-prettyunits" ,r-prettyunits)
873 (home-page "https://github.com/gaborcsardi/progress")
874 (synopsis "Terminal progress bars")
876 "This package provides configurable progress bars. They may include
877 percentage, elapsed time, and/or the estimated completion time. They work in
878 terminals, in Emacs ESS, RStudio, Windows Rgui, and the macOS R.app. The
879 package also provides a C++ API, that works with or without Rcpp.")
880 (license license:expat)))
882 (define-public r-ggally
889 (uri (cran-uri "GGally" version))
892 "1zjmcc5bzagvy7c5cmdcl39xmx07fwi98yrj4i05w7y40kqcsiws"))))
893 (properties `((upstream-name . "GGally")))
894 (build-system r-build-system)
896 `(("libressl" ,libressl)))
898 `(("r-ggplot2" ,r-ggplot2)
899 ("r-gtable" ,r-gtable)
901 ("r-progress" ,r-progress)
902 ("r-rcolorbrewer" ,r-rcolorbrewer)
903 ("r-reshape" ,r-reshape)
904 ("r-rlang" ,r-rlang)))
905 (home-page "https://ggobi.github.io/ggally")
906 (synopsis "Extension to ggplot2")
908 "The R package ggplot2 is a plotting system based on the grammar of
909 graphics. GGally extends ggplot2 by adding several functions to reduce the
910 complexity of combining geometric objects with transformed data. Some of
911 these functions include a pairwise plot matrix, a two group pairwise plot
912 matrix, a parallel coordinates plot, a survival plot, and several functions to
914 (license license:gpl2+)))
916 (define-public r-proxy
923 (uri (cran-uri "proxy" version))
926 "0l0ff8irmmvic941is290hd5vszyhaj5nfwna4v3w9c1zk5nr1ma"))))
927 (build-system r-build-system)
928 (home-page "https://cran.r-project.org/web/packages/proxy")
929 (synopsis "Distance and similarity measures")
931 "This package provides an extensible framework for the efficient
932 calculation of auto- and cross-proximities, along with implementations of the
934 (license license:gpl2)))
943 (uri (cran-uri "sp" version))
946 "17xm1ig80p9wc860hm3bgishz6lj9fxgwqidj7rkbk4ap99qp62p"))))
947 (build-system r-build-system)
949 `(("r-lattice" ,r-lattice)))
950 (home-page "https://cran.r-project.org/web/packages/sp")
951 (synopsis "Classes and methods for spatial data")
953 "This package provides classes and methods for spatial data; the classes
954 document where the spatial location information resides, for 2D or 3D data.
955 Utility functions are provided, e.g. for plotting data as maps, spatial
956 selection, as well as methods for retrieving coordinates, for subsetting,
957 print, summary, etc.")
958 (license license:gpl2+)))
960 (define-public r-rmtstat
967 (uri (cran-uri "RMTstat" version))
970 "1nn25q4kmh9kj975sxkrpa97vh5irqrlqhwsfinbck6h6ia4rsw1"))))
971 (properties `((upstream-name . "RMTstat")))
972 (build-system r-build-system)
973 (home-page "https://cran.r-project.org/web/packages/RMTstat")
974 (synopsis "Distributions, statistics and tests derived from random matrix theory")
976 "This package provides functions for working with the Tracy-Widom laws
977 and other distributions related to the eigenvalues of large Wishart
979 (license license:bsd-3)))
981 (define-public r-rmpi
987 (uri (cran-uri "Rmpi" version))
990 "1b62gs7w1xqadqd7ir41jnxlcf14gcqfxd0915kn9ckdlsdrh0sw"))))
991 (properties `((upstream-name . "Rmpi")))
992 (build-system r-build-system)
994 `(#:configure-flags '("--configure-args=\"--with-Rmpi-type=OPENMPI\"")))
996 `(("openmpi" ,openmpi)))
998 `(("pkg-config" ,pkg-config)))
999 (home-page "http://www.stats.uwo.ca/faculty/yu/Rmpi")
1000 (synopsis "R interface to message-passing interface (MPI)")
1002 "This package provides an interface (wrapper) to MPI APIs. It also
1003 provides an interactive R manager and worker environment.")
1004 (license license:gpl2+)))
1006 (define-public r-lmoments
1013 (uri (cran-uri "Lmoments" version))
1016 "13p0r4w16jvjnyjmkhkp3dwdfr1gap2l0k4k5jy41m8nc5fvcx79"))))
1017 (properties `((upstream-name . "Lmoments")))
1018 (build-system r-build-system)
1019 (home-page "http://www.tilastotiede.fi/juha_karvanen.html")
1020 (synopsis "L-moments and quantile mixtures")
1022 "This package contains functions to estimate L-moments and trimmed
1023 L-moments from the data. It also contains functions to estimate the
1024 parameters of the normal polynomial quantile mixture and the Cauchy polynomial
1025 quantile mixture from L-moments and trimmed L-moments.")
1026 (license license:gpl2)))
1028 (define-public r-distillery
1030 (name "r-distillery")
1035 (uri (cran-uri "distillery" version))
1038 "1m0pgmlvk7bsb6q3kxagnq422babk61sf73naavac68v8x2q8fix"))))
1039 (build-system r-build-system)
1040 (home-page "http://www.ral.ucar.edu/staff/ericg")
1041 (synopsis "Functions for confidence intervals and object information")
1043 "This package provides some very simple method functions for confidence
1044 interval calculation and to distill pertinent information from a potentially
1045 complex object; primarily used in common with the packages extRemes and
1047 (license license:gpl2+)))
1049 (define-public r-extremes
1056 (uri (cran-uri "extRemes" version))
1059 "0cpvcajk9xyy7662nqkyx333vrxpwsc5nmv0bfnhsbgijz5y0hvm"))))
1060 (properties `((upstream-name . "extRemes")))
1061 (build-system r-build-system)
1064 ("r-distillery" ,r-distillery)
1065 ("r-lmoments" ,r-lmoments)))
1066 (home-page "http://www.assessment.ucar.edu/toolkit/")
1067 (synopsis "Extreme value analysis")
1069 "ExtRemes is a suite of functions for carrying out analyses on the
1070 extreme values of a process of interest; be they block maxima over long blocks
1071 or excesses over a high threshold.")
1072 (license license:gpl2+)))
1074 (define-public r-lmtest
1081 (uri (cran-uri "lmtest" version))
1084 "0sym9sm1vl6bbgq01jhz1plxqmgh8hrgrn7rw0mwvsalcn6id7xy"))))
1085 (build-system r-build-system)
1087 `(("r-zoo" ,r-zoo)))
1089 `(("gfortran" ,gfortran)))
1090 (home-page "https://cran.r-project.org/web/packages/lmtest")
1091 (synopsis "Testing linear regression models")
1093 "This package provides a collection of tests, data sets, and examples for
1094 diagnostic checking in linear regression models. Furthermore, some generic
1095 tools for inference in parametric models are provided.")
1096 ;; Either version is okay
1097 (license (list license:gpl2 license:gpl3))))
1099 (define-public r-idr
1105 (uri (cran-uri "idr" version))
1108 "05nvgw1xdg670bsjjrxkgd1mrdkciccpw4krn0zcgdf2r21dzgwb"))))
1109 (build-system r-build-system)
1110 (home-page "https://cran.r-project.org/web/packages/idr/")
1111 (synopsis "Irreproducible discovery rate")
1113 "This is a package for estimating the copula mixture model and plotting
1114 correspondence curves in \"Measuring reproducibility of high-throughput
1115 experiments\" (2011), Annals of Applied Statistics, Vol. 5, No. 3, 1752-1779,
1116 by Li, Brown, Huang, and Bickel")
1117 (license license:gpl2+)))
1119 (define-public r-inline
1125 (uri (cran-uri "inline" version))
1128 "0s4wssvpan189fijahknxq5s22ww9bzmdlmyhnra748r7khky17z"))))
1129 (build-system r-build-system)
1130 (home-page "https://cran.r-project.org/web/packages/inline")
1131 (synopsis "Functions to inline C, C++, Fortran function calls from R")
1133 "This package provides functionality to dynamically define R functions
1134 and S4 methods with inlined C, C++ or Fortran code supporting @code{.C} and
1135 @code{.Call} calling conventions.")
1136 ;; Any version of the LGPL.
1137 (license license:lgpl3+)))
1139 (define-public r-bbmle
1146 (uri (cran-uri "bbmle" version))
1149 "1xzij7swrrzl5ly8l3lw6awh486zcm00251dwqws1y23fbgyh3vc"))))
1150 (build-system r-build-system)
1152 `(("r-lattice" ,r-lattice)
1154 ("r-numderiv" ,r-numderiv)))
1155 (home-page "https://cran.r-project.org/web/packages/bbmle")
1156 (synopsis "Tools for General Maximum Likelihood Estimation")
1158 "This package provides methods and functions for fitting maximum
1159 likelihood models in R. This package modifies and extends the @code{mle}
1160 classes in the @code{stats4} package.")
1161 ;; Any version of the GPL
1162 (license license:gpl2+)))
1164 (define-public r-emdbook
1171 (uri (cran-uri "emdbook" version))
1174 "0880cx6rqm9vgd2zxnd2k0igfl80gy7ak15w36clwlzavab59hmv"))))
1175 (build-system r-build-system)
1177 `(("r-bbmle" ,r-bbmle)
1179 ("r-lattice" ,r-lattice)
1182 ("r-rcpp" ,r-rcpp)))
1183 (home-page "http://www.math.mcmaster.ca/bolker/emdbook")
1184 (synopsis "Support functions and data for \"Ecological Models and Data\"")
1186 "This package provides auxiliary functions and data sets for \"Ecological
1187 Models and Data\", a book presenting maximum likelihood estimation and related
1188 topics for ecologists (ISBN 978-0-691-12522-0).")
1190 (license (list license:gpl2 license:gpl3))))
1192 (define-public r-lpsolve
1199 (uri (cran-uri "lpSolve" version))
1202 "13a9ry8xf5j1f2j6imqrxdgxqz3nqp9sj9b4ivyx9sid459irm6m"))))
1203 (properties `((upstream-name . "lpSolve")))
1204 (build-system r-build-system)
1205 (home-page "https://cran.r-project.org/web/packages/lpSolve")
1206 (synopsis "R interface to Lp_solve to solve linear/integer programs")
1208 "Lp_solve is software for solving linear, integer and mixed integer
1209 programs. This implementation supplies a \"wrapper\" function in C and some R
1210 functions that solve general linear/integer problems, assignment problems, and
1211 transportation problems.")
1212 (license license:lgpl2.0)))
1214 (define-public r-limsolve
1221 (uri (cran-uri "limSolve" version))
1224 "1ll6ir42h3g2fzf0wqai213bm82gpwjj2hfma2np3mz024sc09rg"))))
1225 (properties `((upstream-name . "limSolve")))
1226 (build-system r-build-system)
1228 `(("r-lpsolve" ,r-lpsolve)
1230 ("r-quadprog" ,r-quadprog)))
1231 (native-inputs `(("gfortran" ,gfortran)))
1232 (home-page "https://cran.r-project.org/web/packages/limSolve")
1233 (synopsis "Solving linear inverse models")
1235 "This package provides functions that:
1238 @item find the minimum/maximum of a linear or quadratic function,
1239 @item sample an underdetermined or overdetermined system,
1240 @item solve a linear system Ax=B for the unknown x.
1243 It includes banded and tridiagonal linear systems. The package calls Fortran
1244 functions from LINPACK.")
1246 (license (list license:gpl2+ license:gpl3+))))
1248 (define-public r-fitdistrplus
1250 (name "r-fitdistrplus")
1255 (uri (cran-uri "fitdistrplus" version))
1258 "18x9454g598d54763k3hvi33iszifk7sxvhd1zg5r8z1vpixx3z6"))))
1259 (build-system r-build-system)
1261 `(("r-mass" ,r-mass)
1262 ("r-survival" ,r-survival)))
1263 (home-page "http://riskassessment.r-forge.r-project.org")
1264 (synopsis "Fitting a parametric distribution from data")
1266 "This package extends the @code{fitdistr} function of the MASS package
1267 with several functions to help the fit of a parametric distribution to
1268 non-censored or censored data. Censored data may contain left-censored,
1269 right-censored and interval-censored values, with several lower and upper
1270 bounds. In addition to @dfn{maximum likelihood estimation} (MLE), the package
1271 provides moment matching (MME), quantile matching (QME) and maximum
1272 goodness-of-fit estimation (MGE) methods (available only for non-censored
1273 data). Weighted versions of MLE, MME and QME are available.")
1274 (license license:gpl2+)))
1276 (define-public r-energy
1283 (uri (cran-uri "energy" version))
1286 "12skvlridfq4jd5mh0yxl79ps0zi2xnlh4hsdgxad0gm7qky8awd"))))
1287 (build-system r-build-system)
1289 `(("r-boot" ,r-boot)
1290 ("r-rcpp" ,r-rcpp)))
1291 (home-page "https://cran.r-project.org/web/packages/energy")
1292 (synopsis "Multivariate inference via the energy of data")
1294 "This package provides e-statistics (energy) tests and statistics for
1295 multivariate and univariate inference, including distance correlation,
1296 one-sample, two-sample, and multi-sample tests for comparing multivariate
1297 distributions, are implemented. Measuring and testing multivariate
1298 independence based on distance correlation, partial distance correlation,
1299 multivariate goodness-of-fit tests, clustering based on energy distance,
1300 testing for multivariate normality, distance components (disco) for
1301 non-parametric analysis of structured data, and other energy
1302 statistics/methods are implemented.")
1303 (license license:gpl2+)))
1305 (define-public r-suppdists
1307 (name "r-suppdists")
1312 (uri (cran-uri "SuppDists" version))
1315 "1ffx8wigqqvz2pnh06jjc0fnf4vq9z2rhwk2y3f9aszn18ap3dgw"))))
1316 (properties `((upstream-name . "SuppDists")))
1317 (build-system r-build-system)
1318 (home-page "https://cran.r-project.org/web/packages/SuppDists")
1319 (synopsis "Supplementary distributions")
1321 "This package provides ten distributions supplementing those built into
1322 R. Inverse Gauss, Kruskal-Wallis, Kendall's Tau, Friedman's chi squared,
1323 Spearman's rho, maximum F ratio, the Pearson product moment correlation
1324 coefficient, Johnson distributions, normal scores and generalized
1325 hypergeometric distributions. In addition two random number generators of
1326 George Marsaglia are included.")
1327 (license license:gpl2+)))
1329 (define-public r-ksamples
1336 (uri (cran-uri "kSamples" version))
1339 "15d5q5vpp4wx5rk5kjxjdxpwc8mkq5sbdz8gi07iscrvhzb5rzfr"))))
1340 (properties `((upstream-name . "kSamples")))
1341 (build-system r-build-system)
1343 `(("r-suppdists" ,r-suppdists)))
1344 (home-page "https://cran.r-project.org/web/packages/kSamples")
1345 (synopsis "K-Sample rank tests and their combinations")
1347 "This package provides tools to compares k samples using the
1348 Anderson-Darling test, Kruskal-Wallis type tests with different rank score
1349 criteria, Steel's multiple comparison test, and the Jonckheere-Terpstra (JT)
1350 test. It computes asymptotic, simulated or (limited) exact P-values, all
1351 valid under randomization, with or without ties, or conditionally under random
1352 sampling from populations, given the observed tie pattern. Except for Steel's
1353 test and the JT test it also combines these tests across several blocks of
1355 (license license:gpl2+)))
1357 (define-public r-cvst
1364 (uri (cran-uri "CVST" version))
1367 "05l3yzkfrbds09ah9cdwn2sn4ryhq78lz33ryzrgkv176jc8qjw5"))))
1368 (properties `((upstream-name . "CVST")))
1369 (build-system r-build-system)
1371 `(("r-kernlab" ,r-kernlab)
1372 ("r-matrix" ,r-matrix)))
1373 (home-page "https://cran.r-project.org/web/packages/CVST")
1374 (synopsis "Fast cross-validation via sequential testing")
1376 "This package implements the fast cross-validation via sequential
1377 testing (CVST) procedure. CVST is an improved cross-validation procedure
1378 which uses non-parametric testing coupled with sequential analysis to
1379 determine the best parameter set on linearly increasing subsets of the data.
1380 Additionally to the CVST the package contains an implementation of the
1381 ordinary k-fold cross-validation with a flexible and powerful set of helper
1382 objects and methods to handle the overall model selection process. The
1383 implementations of the Cochran's Q test with permutations and the sequential
1384 testing framework of Wald are generic and can therefore also be used in other
1386 (license license:gpl2+)))
1388 (define-public r-squarem
1391 (version "2017.10-1")
1395 (uri (cran-uri "SQUAREM" version))
1398 "10xj26x7qjyvzndnbjl5krr9wabnb9cbrnp3m7xg673g8ddr12cv"))))
1399 (properties `((upstream-name . "SQUAREM")))
1400 (build-system r-build-system)
1401 (home-page "http://www.jhsph.edu/agingandhealth/People/Faculty_personal_pages/Varadhan.html")
1402 (synopsis "Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms")
1404 "This package provides algorithms for accelerating the convergence of
1405 slow, monotone sequences from smooth, contraction mapping such as the EM
1406 algorithm. It can be used to accelerate any smooth, linearly convergent
1407 acceleration scheme. A tutorial style introduction to this package is
1408 available in a vignette.")
1409 (license license:gpl2+)))
1411 (define-public r-lava
1418 (uri (cran-uri "lava" version))
1421 "1r47pps39cgvxhg1s0bqknf4jl91pbb0c76q5icxivhwb172fqcm"))))
1422 (build-system r-build-system)
1424 `(("r-numderiv" ,r-numderiv)
1425 ("r-squarem" ,r-squarem)
1426 ("r-survival" ,r-survival)))
1427 (home-page "https://github.com/kkholst/lava")
1428 (synopsis "Latent variable models")
1430 "This package provides tools for the estimation and simulation of latent
1432 (license license:gpl3)))
1434 (define-public r-drr
1441 (uri (cran-uri "DRR" version))
1444 "1yd1fvllfkcrwg9v322n4wkk4q4q84nvy58y4vac9pdr3yf3i4vl"))))
1445 (properties `((upstream-name . "DRR")))
1446 (build-system r-build-system)
1448 `(("r-cvst" ,r-cvst)
1449 ("r-kernlab" ,r-kernlab)
1450 ("r-matrix" ,r-matrix)))
1451 (home-page "https://cran.r-project.org/web/packages/DRR")
1452 (synopsis "Dimensionality reduction via regression")
1454 "This package provides an implementation of dimensionality reduction via
1455 regression using Kernel Ridge Regression.")
1456 (license license:gpl3)))
1458 (define-public r-prodlim
1461 (version "2018.04.18")
1465 (uri (cran-uri "prodlim" version))
1468 "1aslq87sqwikh8chxc378r38146y7kv79zz0kcq3j93ivx7va8jb"))))
1469 (build-system r-build-system)
1471 `(("r-kernsmooth" ,r-kernsmooth)
1474 ("r-survival" ,r-survival)))
1475 (home-page "https://cran.r-project.org/web/packages/prodlim")
1476 (synopsis "Product-limit estimation for censored event history analysis")
1478 "This package provides a fast and user-friendly implementation of
1479 nonparametric estimators for censored event history (survival) analysis with
1480 the Kaplan-Meier and Aalen-Johansen methods.")
1481 (license license:gpl2+)))
1483 (define-public r-dimred
1490 (uri (cran-uri "dimRed" version))
1493 "0fasca5fsbrxdwv30hch7vb9snb844l7l8p5fjf239dq45xfy37v"))))
1494 (properties `((upstream-name . "dimRed")))
1495 (build-system r-build-system)
1496 (propagated-inputs `(("r-drr" ,r-drr)))
1497 (home-page "https://github.com/gdkrmr/dimRed")
1498 (synopsis "Framework for dimensionality reduction")
1500 "This package provides a collection of dimensionality reduction
1501 techniques from R packages and provides a common interface for calling the
1503 (license license:gpl3)))
1505 (define-public r-timedate
1508 (version "3043.102")
1512 (uri (cran-uri "timeDate" version))
1515 "0wvl5pq261rvbgly7vilk3x3m9xk3ly6il1i5scwdf6srl1vlz1p"))))
1516 (properties `((upstream-name . "timeDate")))
1517 (build-system r-build-system)
1518 (home-page "https://www.rmetrics.org")
1519 (synopsis "Chronological and calendar objects")
1521 "This package provides an environment for teaching \"Financial
1522 Engineering and Computational Finance\" and for managing chronological and
1524 (license license:gpl2+)))
1526 (define-public r-magic
1533 (uri (cran-uri "magic" version))
1536 "083cgpp3v03li0h8597b3g21pd9lkbmn9pyssblnhc800mpc52vz"))))
1537 (build-system r-build-system)
1539 `(("r-abind" ,r-abind)))
1540 (home-page "https://github.com/RobinHankin/magic.git")
1541 (synopsis "Create and investigate magic squares")
1543 "This package provides a collection of efficient, vectorized algorithms
1544 for the creation and investigation of magic squares and hypercubes, including
1545 a variety of functions for the manipulation and analysis of arbitrarily
1546 dimensioned arrays.")
1547 (license license:gpl2)))
1549 (define-public r-geometry
1556 (uri (cran-uri "geometry" version))
1559 "0s09vi0rr0smys3an83mz6fk41bplxyz4myrbiinf4qpk6n33qib"))))
1560 (build-system r-build-system)
1561 (propagated-inputs `(("r-magic" ,r-magic)))
1562 (home-page "http://geometry.r-forge.r-project.org/")
1563 (synopsis "Mesh generation and surface tesselation")
1565 "This package makes the qhull library available in R, in a similar manner
1566 as in Octave. Qhull computes convex hulls, Delaunay triangulations, halfspace
1567 intersections about a point, Voronoi diagrams, furthest-site Delaunay
1568 triangulations, and furthest-site Voronoi diagrams. It runs in 2-d, 3-d, 4-d,
1569 and higher dimensions. It implements the Quickhull algorithm for computing
1570 the convex hull. Qhull does not support constrained Delaunay triangulations,
1571 or mesh generation of non-convex objects, but the package does include some R
1572 functions that allow for this. Currently the package only gives access to
1573 Delaunay triangulation and convex hull computation.")
1574 ;; The Qhull sources are included and are distributed under a custom
1575 ;; non-copyleft license. The R sources are released under GPL version 2.
1576 (license (list license:gpl2
1577 (license:non-copyleft "http://www.qhull.org/COPYING.txt")))))
1579 (define-public r-ddalpha
1586 (uri (cran-uri "ddalpha" version))
1589 "16cn0bhbaz9l9k4y79sv2d4f7pvs7dyka273y89igs5jvr99kfj1"))))
1590 (build-system r-build-system)
1593 ("r-class" ,r-class)
1594 ("r-geometry" ,r-geometry)
1597 ("r-robustbase" ,r-robustbase)
1598 ("r-sfsmisc" ,r-sfsmisc)))
1600 `(("gfortran" ,gfortran)))
1601 (home-page "https://cran.r-project.org/web/packages/ddalpha")
1602 (synopsis "Depth-Based classification and calculation of data depth")
1604 "This package contains procedures for depth-based supervised learning,
1605 which are entirely non-parametric, in particular the DDalpha-procedure (Lange,
1606 Mosler and Mozharovskyi, 2014). The training data sample is transformed by a
1607 statistical depth function to a compact low-dimensional space, where the final
1608 classification is done. It also offers an extension to functional data and
1609 routines for calculating certain notions of statistical depth functions. 50
1610 multivariate and 5 functional classification problems are included.")
1611 (license license:gpl2)))
1613 (define-public r-gower
1620 (uri (cran-uri "gower" version))
1623 "1mbrj1lam3jfbby2j32shmmj5cn09zx3rkxbamq7q8sdg39b54gb"))))
1624 (build-system r-build-system)
1626 `(("r-knitr" ,r-knitr)))
1627 (home-page "https://github.com/markvanderloo/gower")
1628 (synopsis "Gower's distance")
1630 "This package provides tools to compute Gower's distance (or similarity)
1631 coefficient between records, and to compute the top-n matches between records.
1632 Core algorithms are executed in parallel on systems supporting OpenMP.")
1633 (license license:gpl3)))
1635 (define-public r-rcpproll
1642 (uri (cran-uri "RcppRoll" version))
1645 "0srzfhzkk42kzrdjnhbb37946jp1p688rgysy6k3i2is8jb21zyb"))))
1646 (properties `((upstream-name . "RcppRoll")))
1647 (build-system r-build-system)
1649 `(("r-rcpp" ,r-rcpp)))
1650 (home-page "https://cran.r-project.org/web/packages/RcppRoll")
1651 (synopsis "Efficient rolling and windowed operations")
1653 "This package provides fast and efficient routines for common rolling /
1654 windowed operations. Routines for the efficient computation of windowed mean,
1655 median, sum, product, minimum, maximum, standard deviation and variance are
1657 (license license:gpl2+)))
1659 (define-public r-ipred
1666 (uri (cran-uri "ipred" version))
1669 "1vrw1pqcpnc04x1r2h9grdfm6bivs358sww5gg90jwlvxcw69lxq"))))
1670 (build-system r-build-system)
1672 `(("r-class" ,r-class)
1675 ("r-prodlim" ,r-prodlim)
1676 ("r-rpart" ,r-rpart)
1677 ("r-survival" ,r-survival)))
1678 (home-page "https://cran.r-project.org/web/packages/ipred")
1679 (synopsis "Improved predictors")
1681 "This package provides improved predictive models by indirect
1682 classification and bagging for classification, regression and survival
1683 problems as well as resampling based estimators of prediction error.")
1684 (license license:gpl2+)))
1686 (define-public r-psych
1693 (uri (cran-uri "psych" version))
1696 "0daismb8pdk392vdy304hqx0m3jx62gx3a0hygjygc125rhfla7k"))))
1697 (build-system r-build-system)
1699 `(("r-foreign" ,r-foreign)
1700 ("r-lattice" ,r-lattice)
1701 ("r-mnormt" ,r-mnormt)
1702 ("r-nlme" ,r-nlme)))
1703 (home-page "https://cran.r-project.org/web/packages/psych/")
1704 (synopsis "Procedures for psychological, psychometric, and personality research")
1706 "This package provides a general purpose toolbox for personality,
1707 psychometric theory and experimental psychology. Functions are primarily for
1708 multivariate analysis and scale construction using factor analysis, principal
1709 component analysis, cluster analysis and reliability analysis, although others
1710 provide basic descriptive statistics. Item Response Theory is done using
1711 factor analysis of tetrachoric and polychoric correlations. Functions for
1712 analyzing data at multiple levels include within and between group statistics,
1713 including correlations and factor analysis. Functions for simulating and
1714 testing particular item and test structures are included. Several functions
1715 serve as a useful front end for structural equation modeling. Graphical
1716 displays of path diagrams, factor analysis and structural equation models are
1717 created using basic graphics.")
1718 (license license:gpl2+)))
1720 (define-public r-broom
1727 (uri (cran-uri "broom" version))
1730 "1mrrqqw1bmjf2v88ziqwb5y86g29h0a3rsx2jpw0hrzrzb8i5kcb"))))
1731 (build-system r-build-system)
1733 `(("r-dplyr" ,r-dplyr)
1736 ("r-psych" ,r-psych)
1737 ("r-reshape2" ,r-reshape2)
1738 ("r-stringr" ,r-stringr)
1739 ("r-tidyr" ,r-tidyr)))
1740 (home-page "https://github.com/tidyverse/broom")
1741 (synopsis "Convert statistical analysis objects into tidy data frames")
1743 "This package provides tools to convert statistical analysis objects from
1744 R into tidy data frames, so that they can more easily be combined, reshaped
1745 and otherwise processed with tools like @code{dplyr}, @code{tidyr} and
1746 @code{ggplot2}. The package provides three S3 generics: @code{tidy}, which
1747 summarizes a model's statistical findings such as coefficients of a
1748 regression; @code{augment}, which adds columns to the original data such as
1749 predictions, residuals and cluster assignments; and @code{glance}, which
1750 provides a one-row summary of model-level statistics.")
1751 (license license:expat)))
1753 (define-public r-recipes
1760 (uri (cran-uri "recipes" version))
1763 "1vqh3pxs4n1azhnd1lzg91vasya6g323kllhbrw177j7kdxqyimy"))))
1764 (build-system r-build-system)
1766 `(("r-broom" ,r-broom)
1767 ("r-ddalpha" ,r-ddalpha)
1768 ("r-dimred" ,r-dimred)
1769 ("r-dplyr" ,r-dplyr)
1770 ("r-gower" ,r-gower)
1771 ("r-ipred" ,r-ipred)
1772 ("r-lubridate" ,r-lubridate)
1773 ("r-magrittr" ,r-magrittr)
1774 ("r-matrix" ,r-matrix)
1776 ("r-purrr" ,r-purrr)
1777 ("r-rcpproll" ,r-rcpproll)
1778 ("r-rlang" ,r-rlang)
1779 ("r-tibble" ,r-tibble)
1780 ("r-tidyselect" ,r-tidyselect)
1781 ("r-timedate" ,r-timedate)))
1782 (home-page "https://github.com/topepo/recipes")
1783 (synopsis "Preprocessing tools to create design matrices")
1785 "Recipes is an extensible framework to create and preprocess design
1786 matrices. Recipes consist of one or more data manipulation and analysis
1787 \"steps\". Statistical parameters for the steps can be estimated from an
1788 initial data set and then applied to other data sets. The resulting design
1789 matrices can then be used as inputs into statistical or machine learning
1791 (license license:gpl2)))
1793 (define-public r-pdist
1800 (uri (cran-uri "pdist" version))
1803 "18nd3mgad11f2zmwcp0w3sxlch4a9y6wp8dfdyzvjn7y4b4bq0dd"))))
1804 (build-system r-build-system)
1805 (home-page "https://github.com/jeffwong/pdist")
1806 (synopsis "Partitioned distance function")
1808 "Pdist computes the euclidean distance between rows of a matrix X and
1809 rows of another matrix Y. Previously, this could be done by binding the two
1810 matrices together and calling @code{dist}, but this creates unnecessary
1811 computation by computing the distances between a row of X and another row of
1812 X, and likewise for Y. Pdist strictly computes distances across the two
1813 matrices, not within the same matrix, making computations significantly faster
1814 for certain use cases.")
1815 (license license:gpl3+)))
1817 (define-public r-ggrepel
1824 (uri (cran-uri "ggrepel" version))
1827 "1m3p84d6nh9mzzvxb82vgig3ngcvkz86rjwzl9a66ckdf5p611k3"))))
1828 (build-system r-build-system)
1830 `(("r-ggplot2" ,r-ggplot2)
1832 ("r-scales" ,r-scales)))
1833 (home-page "http://github.com/slowkow/ggrepel")
1834 (synopsis "Repulsive text and label geometries for ggplot2")
1836 "This package provides text and label geometries for ggplot2 that help to
1837 avoid overlapping text labels. Labels repel away from each other and away
1838 from the data points.")
1839 (license license:gpl3)))
1841 (define-public r-corrplot
1848 (uri (cran-uri "corrplot" version))
1851 "1k03qd8db7pwg1v318xapx5mpiypiz2n07qr19c4b45diri5xkhd"))))
1852 (build-system r-build-system)
1853 (home-page "https://github.com/taiyun/corrplot")
1854 (synopsis "Visualization of a correlation matrix")
1856 "This package provides a graphical display of a correlation matrix or
1857 general matrix. It also contains some algorithms to do matrix reordering. In
1858 addition, corrplot is good at details, including choosing color, text labels,
1859 color labels, layout, etc.")
1860 ;; Any version of the GPL
1861 (license license:gpl2+)))
1863 (define-public r-stringdist
1865 (name "r-stringdist")
1870 (uri (cran-uri "stringdist" version))
1873 "0gap1g9xwhp0zxqsznkc2carpvi80z03prr4q8m528684lznx2xa"))))
1874 (build-system r-build-system)
1875 (home-page "https://github.com/markvanderloo/stringdist")
1876 (synopsis "Approximate string matching and string distance functions")
1878 "This package implements an approximate string matching version of R's
1879 native @code{match} function. It can calculate various string distances based
1880 on edits (Damerau-Levenshtein, Hamming, Levenshtein, optimal sting alignment),
1881 qgrams (q- gram, cosine, jaccard distance) or heuristic metrics (Jaro,
1882 Jaro-Winkler). An implementation of soundex is provided as well. Distances
1883 can be computed between character vectors while taking proper care of encoding
1884 or between integer vectors representing generic sequences.")
1885 (license license:gpl3+)))
1887 (define-public r-jomo
1894 (uri (cran-uri "jomo" version))
1897 "0zyqwa2y08asj9xqwnngh6da1b9cqcx8pzc9cxwrmgnxd5nnsjb7"))))
1898 (build-system r-build-system)
1900 `(("r-lme4" ,r-lme4)
1901 ("r-survival" ,r-survival)))
1902 (home-page "https://cran.r-project.org/web/packages/jomo/")
1903 (synopsis "Multilevel Joint Modelling Multiple Imputation")
1905 "Similarly to Schafer's package pan, jomo is a package for multilevel
1906 joint modelling multiple imputation @url{Carpenter and Kenward (2013),
1907 http://doi.org/10.1002/9781119942283}. Novel aspects of jomo are the
1908 possibility of handling binary and categorical data through latent normal
1909 variables, the option to use cluster-specific covariance matrices and to
1910 impute compatibly with the substantive model.")
1911 (license license:gpl2)))
1913 (define-public r-pan
1920 (uri (cran-uri "pan" version))
1923 "1p3nigmhrnlch86g89hn7l0wvkifx3k9n59g0psi95yck43kza76"))))
1924 (build-system r-build-system)
1925 (native-inputs `(("gfortran" ,gfortran)))
1926 (home-page "https://cran.r-project.org/web/packages/pan/")
1927 (synopsis "Multiple imputation for multivariate panel or clustered data")
1929 "This package implements multiple imputation for multivariate panel or
1931 (license license:gpl3)))
1933 (define-public r-mitml
1940 (uri (cran-uri "mitml" version))
1943 "1s888r9y2ri39b48h1iypps6lddqkqv3g31l2sjmi2pvyccfpkwb"))))
1944 (build-system r-build-system)
1946 `(("r-haven" ,r-haven)
1949 (home-page "https://cran.r-project.org/web/packages/mitml/")
1950 (synopsis "Tools for multiple imputation in multilevel modeling")
1952 "This package provides tools for multiple imputation of missing data in
1953 multilevel modeling. It includes a user-friendly interface to the packages
1954 pan and jomo, and several functions for visualization, data management and the
1955 analysis of multiply imputed data sets.")
1956 (license license:gpl2+)))
1958 (define-public r-mice
1965 (uri (cran-uri "mice" version))
1968 "0xpn215yfzib4hw09cwilnyg9zbvq460njavfvm84mvgwbm25byi"))))
1969 (build-system r-build-system)
1971 `(("r-broom" ,r-broom)
1972 ("r-dplyr" ,r-dplyr)
1973 ("r-lattice" ,r-lattice)
1975 ("r-mitml" ,r-mitml)
1978 ("r-rlang" ,r-rlang)
1979 ("r-rpart" ,r-rpart)
1980 ("r-survival" ,r-survival)))
1981 (home-page "https://cran.r-project.org/web/packages/mice/")
1982 (synopsis "Multivariate imputation by chained equations")
1984 "Multiple imputation using @dfn{Fully Conditional Specification} (FCS)
1985 implemented by the MICE algorithm as described in @url{Van Buuren and
1986 Groothuis-Oudshoorn (2011), http://doi.org/10.18637/jss.v045.i03}. Each
1987 variable has its own imputation model. Built-in imputation models are
1988 provided for continuous data (predictive mean matching, normal), binary
1989 data (logistic regression), unordered categorical data (polytomous logistic
1990 regression) and ordered categorical data (proportional odds). MICE can also
1991 impute continuous two-level data (normal model, pan, second-level variables).
1992 Passive imputation can be used to maintain consistency between variables.
1993 Various diagnostic plots are available to inspect the quality of the
1995 ;; Any of these two versions.
1996 (license (list license:gpl2 license:gpl3))))
1998 (define-public r-truncnorm
2000 (name "r-truncnorm")
2005 (uri (cran-uri "truncnorm" version))
2008 "0zn88wdd58223kibk085rhsikl4yhlrwiyq109hzjg06hy6lwmj9"))))
2009 (build-system r-build-system)
2010 (home-page "https://cran.r-project.org/web/packages/truncnorm/")
2011 (synopsis "Truncated normal distribution")
2012 (description "This package provides functions for the truncated normal
2013 distribution with mean equal to @code{mean} and standard deviation equal to
2014 @code{sd}. It includes density, distribution, quantile, and expected value
2015 functions, as well as a random generation function.")
2016 (license license:gpl2)))
2018 (define-public r-rsolnp
2025 (uri (cran-uri "Rsolnp" version))
2028 "0w7nkj6igr0gi7r7jg950lsx7dj6aipgxi6vbjsf5f5yc9h7fhii"))))
2029 (properties `((upstream-name . "Rsolnp")))
2030 (build-system r-build-system)
2032 `(("r-truncnorm" ,r-truncnorm)))
2033 (home-page "https://cran.r-project.org/web/packages/Rsolnp/")
2034 (synopsis "General non-linear optimization")
2035 (description "The Rsolnp package implements a general non-linear augmented
2036 Lagrange multiplier method solver, a @dfn{sequential quadratic
2037 programming} (SQP) based solver).")
2038 ;; Any version of the GPL.
2039 (license license:gpl2+)))
2041 (define-public r-hardyweinberg
2043 (name "r-hardyweinberg")
2048 (uri (cran-uri "HardyWeinberg" version))
2051 "16n8qanxx0p5ny5zqxafn8hwb1xv94y1wig1iql8as5a5qh8lwcz"))))
2052 (properties `((upstream-name . "HardyWeinberg")))
2053 (build-system r-build-system)
2055 `(("r-mice" ,r-mice)
2057 ("r-rsolnp" ,r-rsolnp)))
2058 (home-page "https://cran.r-project.org/package=HardyWeinberg")
2059 (synopsis "Statistical tests and graphics for Hardy-Weinberg equilibrium")
2061 "This package contains tools for exploring Hardy-Weinberg equilibrium for
2062 diallelic genetic marker data. All classical tests (chi-square, exact,
2063 likelihood-ratio and permutation tests) for Hardy-Weinberg equilibrium are
2064 included in the package, as well as functions for power computation and for
2065 the simulation of marker data under equilibrium and disequilibrium. Routines
2066 for dealing with markers on the X-chromosome are included. Functions for
2067 testing equilibrium in the presence of missing data by using multiple
2068 imputation are also provided. Implements several graphics for exploring the
2069 equilibrium status of a large set of diallelic markers: ternary plots with
2070 acceptance regions, log-ratio plots and Q-Q plots.")
2071 (license license:gpl2+)))
2080 (uri (cran-uri "sm" version))
2083 "1rw2mxygxsmk8mn4wag1ppjgzk0rlvh6zd8q02qrhjrn9jhi5qj3"))))
2084 (build-system r-build-system)
2085 (native-inputs `(("gfortran" ,gfortran)))
2086 (home-page "http://www.stats.gla.ac.uk/~adrian/sm/")
2087 (synopsis "Smoothing methods for nonparametric regression and density estimation")
2089 "This is software accompanying the book 'Applied Smoothing Techniques for
2090 Data Analysis---The Kernel Approach with S-Plus Illustrations', Oxford
2091 University Press. It provides smoothing methods for nonparametric regression
2092 and density estimation")
2093 (license license:gpl2+)))
2095 (define-public r-venndiagram
2097 (name "r-venndiagram")
2101 (uri (cran-uri "VennDiagram" version))
2104 "1ic1jaxzw98si2p4n1fl4n3myhd7fpw0njb634cwhviwybzv6775"))))
2105 (properties `((upstream-name . "VennDiagram")))
2106 (build-system r-build-system)
2108 `(("r-futile-logger" ,r-futile-logger)))
2109 (home-page "https://cran.r-project.org/web/packages/VennDiagram/")
2110 (synopsis "Generate High-Resolution Venn and Euler Plots")
2112 "This package provides a set of functions to generate high-resolution
2113 Venn and Euler plots. It includes handling for several special cases,
2114 including two-case scaling, and extensive customization of plot shape and
2116 (license license:gpl2+)))
2118 (define-public r-vioplot
2125 (uri (cran-uri "vioplot" version))
2128 "16wkb26kv6qr34hv5zgqmgq6zzgysg9i78pvy2c097lr60v087v0"))))
2129 (build-system r-build-system)
2130 (propagated-inputs `(("r-sm" ,r-sm)))
2131 (home-page "http://wsopuppenkiste.wiso.uni-goettingen.de/~dadler")
2132 (synopsis "Violin plot")
2134 "This package provides a violin plot, which is a combination of a box
2135 plot and a kernel density plot.")
2136 (license license:bsd-3)))
2138 (define-public r-rsofia
2144 ;; This package has been removed from CRAN, so we can
2145 ;; only fetch it from the archives.
2146 (uri (string-append "https://cran.r-project.org/src/"
2147 "contrib/Archive/RSofia/RSofia_"
2151 "0q931y9rcf6slb0s2lsxhgqrzy4yqwh8hb1124nxg0bjbxvjbihn"))))
2152 (properties `((upstream-name . "RSofia")))
2153 (build-system r-build-system)
2155 `(("r-rcpp" ,r-rcpp)))
2156 (home-page "https://cran.r-project.org/src/contrib/Archive/RSofia")
2157 (synopsis "Port of sofia-ml to R")
2158 (description "This package is a port of sofia-ml to R. Sofia-ml is a
2159 suite of fast incremental algorithms for machine learning that can be used for
2160 training models for classification or ranking.")
2161 (license license:asl2.0)))
2163 (define-public r-xts
2170 (uri (cran-uri "xts" version))
2173 "1i11fczks4lh8rpi6xbm9bm7f3jpcp6xw03kv178g3n3361qhmc1"))))
2174 (build-system r-build-system)
2175 (propagated-inputs `(("r-zoo" ,r-zoo)))
2176 (native-inputs `(("gfortran" ,gfortran)))
2177 (home-page "https://github.com/joshuaulrich/xts")
2178 (synopsis "Extensible time series")
2180 "This package provides for uniform handling of R's different time-based
2181 data classes by extending @code{zoo}, maximizing native format information
2182 preservation and allowing for user-level customization and extension, while
2183 simplifying cross-class interoperability.")
2184 (license license:gpl2+)))
2186 (define-public r-performanceanalytics
2188 (name "r-performanceanalytics")
2193 (uri (cran-uri "PerformanceAnalytics" version))
2196 "01bgm57z079g6r505w3bj293zkbd49fwa8sg55z87vizwavipml6"))))
2198 `((upstream-name . "PerformanceAnalytics")))
2199 (build-system r-build-system)
2201 `(("r-quadprog" ,r-quadprog)
2204 (home-page "https://r-forge.r-project.org/projects/returnanalytics/")
2205 (synopsis "Econometric tools for performance and risk analysis")
2206 (description "This is a collection of econometric functions for
2207 performance and risk analysis. This package aims to aid practitioners and
2208 researchers in utilizing the latest research in analysis of non-normal return
2209 streams. In general, it is most tested on return (rather than price) data on
2210 a regular scale, but most functions will work with irregular return data as
2211 well, and increasing numbers of functions will work with P&L or price data
2213 ;; Either version may be picked.
2214 (license (list license:gpl2 license:gpl3))))
2216 (define-public r-laeken
2223 (uri (cran-uri "laeken" version))
2226 "1rhkv1kk508pwln1d325iq4fink2ncssps0ypxi52j9d7wk78la6"))))
2227 (build-system r-build-system)
2229 `(("r-boot" ,r-boot)
2230 ("r-mass" ,r-mass)))
2231 (home-page "https://cran.r-project.org/web/packages/laeken/")
2232 (synopsis "Estimation of indicators on social exclusion and poverty")
2233 (description "This package provides tools for the estimation of indicators
2234 on social exclusion and poverty, as well as an implementation of Pareto tail
2235 modeling for empirical income distributions.")
2236 (license license:gpl2+)))
2238 (define-public r-vcd
2245 (uri (cran-uri "vcd" version))
2248 "1lp99h0wvsc61l1dgcqjxdrcgpgw88ak430cdsv43kmm43qssqd5"))))
2249 (build-system r-build-system)
2251 `(("r-colorspace" ,r-colorspace)
2252 ("r-lmtest" ,r-lmtest)
2253 ("r-mass" ,r-mass)))
2254 (home-page "https://cran.r-project.org/web/packages/vcd/")
2255 (synopsis "Visualizing categorical data")
2256 (description "This package provides visualization techniques, data sets,
2257 summary and inference procedures aimed particularly at categorical data.
2258 Special emphasis is given to highly extensible grid graphics. The package was
2259 originally inspired by the book \"Visualizing Categorical Data\" by Michael
2260 Friendly and is now the main support package for a new book, \"Discrete Data
2261 Analysis with R\" by Michael Friendly and David Meyer (2015).")
2262 (license license:gpl2)))
2264 (define-public r-ica
2271 (uri (cran-uri "ica" version))
2274 "0ya1nph1zwhad0bfz4yxs27kl45yk1dhnphdlrq34p8pqrpmj8g7"))))
2275 (build-system r-build-system)
2276 (home-page "https://cran.r-project.org/web/packages/ica/")
2277 (synopsis "Independent component analysis")
2278 (description "This package provides tools for @dfn{Independent Component
2279 Analysis} (ICA) using various algorithms: FastICA,
2280 Information-Maximization (Infomax), and @dfn{Joint Approximate Diagonalization
2281 of Eigenmatrices} (JADE).")
2282 (license license:gpl2+)))
2284 (define-public r-dtw
2291 (uri (cran-uri "dtw" version))
2294 "1w301xwizncy5r8v9rwwdxfshydgp3l1pnjla1fjn6n8lx3imjj3"))))
2295 (build-system r-build-system)
2296 (propagated-inputs `(("r-proxy" ,r-proxy)))
2297 (home-page "http://dtw.r-forge.r-project.org/")
2298 (synopsis "Dynamic Time Warping Algorithms")
2299 (description "This package provides a comprehensive implementation of
2300 @dfn{dynamic time warping} (DTW) algorithms in R. DTW computes the
2301 optimal (least cumulative distance) alignment between points of two time
2302 series. Common DTW variants covered include local (slope) and global (window)
2303 constraints, subsequence matches, arbitrary distance definitions,
2304 normalizations, minimum variance matching, and so on.")
2305 (license license:gpl2+)))
2307 (define-public r-sdmtools
2314 (uri (cran-uri "SDMTools" version))
2317 "1kacrpamshv7wz83yn45sfbw4m9c44xrrngzcklnwx8gcxx2knm6"))))
2318 (properties `((upstream-name . "SDMTools")))
2319 (build-system r-build-system)
2320 (propagated-inputs `(("r-r-utils" ,r-r-utils)))
2321 (home-page "http://www.rforge.net/SDMTools/")
2322 (synopsis "Species distribution modelling tools")
2323 (description "This packages provides a set of tools for post processing
2324 the outcomes of species distribution modeling exercises. It includes novel
2325 methods for comparing models and tracking changes in distributions through
2326 time. It further includes methods for visualizing outcomes, selecting
2327 thresholds, calculating measures of accuracy and landscape fragmentation
2329 (license license:gpl3+)))
2331 (define-public r-scatterplot3d
2333 (name "r-scatterplot3d")
2338 (uri (cran-uri "scatterplot3d" version))
2341 "152xqz9c70qab86mpgng049gxsg5f4fpf1m8dh93fb9v1avjd0sc"))))
2342 (build-system r-build-system)
2343 (home-page "https://cran.r-project.org/web/packages/scatterplot3d/")
2344 (synopsis "3D scatter plot")
2345 (description "This package provides an implementation of scatter plots for
2346 plotting. a three dimensional point cloud.")
2347 (license license:gpl2)))
2349 (define-public r-ggridges
2356 (uri (cran-uri "ggridges" version))
2359 "1znvsbl3px8dddpjgdrygnpz4s685wizi0jnjvx2hrz58i0chjqj"))))
2360 (build-system r-build-system)
2362 `(("r-ggplot2" ,r-ggplot2)
2364 ("r-scales" ,r-scales)
2365 ("r-withr" ,r-withr)))
2366 (home-page "https://github.com/clauswilke/ggridges")
2367 (synopsis "Ridgeline plots in ggplot2")
2369 "Ridgeline plots provide a convenient way of visualizing changes in
2370 distributions over time or space. This package enables the creation of such
2371 plots in @code{ggplot2}.")
2372 (license license:gpl2)))
2374 (define-public r-ggjoy
2381 (uri (cran-uri "ggjoy" version))
2384 "012md2m0jqfcccb933j423m3ck31v3p0pd41gjxpyg9082y7ixyj"))))
2385 (build-system r-build-system)
2387 `(("r-ggplot2" ,r-ggplot2)
2388 ("r-ggridges" ,r-ggridges)))
2389 (home-page "https://github.com/clauswilke/ggjoy")
2390 (synopsis "Joyplots in ggplot2")
2391 (description "Joyplots provide a convenient way of visualizing changes in
2392 distributions over time or space. This package enables the creation of such
2393 plots in @code{ggplot2}.")
2394 (license license:gpl2)))
2396 (define-public r-cli
2403 (uri (cran-uri "cli" version))
2406 "07as3dr7vwx02p3qgzlmxz1dlrd3x3lysrzp222ip9jcjpydp8wg"))))
2407 (build-system r-build-system)
2409 `(("r-assertthat" ,r-assertthat)
2410 ("r-crayon" ,r-crayon)))
2411 (home-page "https://github.com/r-lib/cli#readme")
2412 (synopsis "Helpers for developing command line interfaces")
2413 (description "This package provides a suite of tools designed to build
2414 attractive command line interfaces (CLIs). It includes tools for drawing
2415 rules, boxes, trees, and Unicode symbols with ASCII alternatives.")
2416 (license license:expat)))
2418 (define-public r-argparser
2420 (name "r-argparser")
2425 (uri (cran-uri "argparser" version))
2428 "0s1wxshx4jk69wfxhycx973q6y8cmqrfymyjklhq1i8xrj0kmmx9"))))
2429 (build-system r-build-system)
2430 (home-page "https://bitbucket.org/djhshih/argparser")
2431 (synopsis "Command-line argument parser")
2433 "This package provides a cross-platform command-line argument parser
2434 written purely in R with no external dependencies. It is useful with the
2435 Rscript front-end and facilitates turning an R script into an executable
2437 (license license:gpl3+)))
2439 (define-public r-debugme
2446 (uri (cran-uri "debugme" version))
2449 "1c9sg55zvf10h8198jdnpamm6f66lzw3c3jnmdp9ls6na0j0xbjd"))))
2450 (build-system r-build-system)
2451 (propagated-inputs `(("r-crayon" ,r-crayon)))
2452 (home-page "https://github.com/r-lib/debugme#readme")
2453 (synopsis "Debug R packages")
2455 "This package allows the user to specify debug messages as special string
2456 constants, and control debugging of packages via environment variables.")
2457 (license license:expat)))
2459 (define-public r-processx
2466 (uri (cran-uri "processx" version))
2469 "0wjr3cqwvnjxbvln25szffmkns5w0xysivdjr6chxap4nh515b0i"))))
2470 (build-system r-build-system)
2472 `(("r-assertthat" ,r-assertthat)
2473 ("r-crayon" ,r-crayon)
2475 ("r-testthat" ,r-testthat)))
2476 (home-page "https://github.com/r-lib/processx3")
2477 (synopsis "Execute and control system processes")
2479 "This package provides portable tools to run system processes in the
2480 background. It can check if a background process is running; wait on a
2481 background process to finish; get the exit status of finished processes; kill
2482 background processes and their children; restart processes. It can read the
2483 standard output and error of the processes, using non-blocking connections.
2484 @code{processx} can poll a process for standard output or error, with a
2485 timeout. It can also poll several processes at once.")
2486 (license license:expat)))
2488 (define-public r-tsp
2495 (uri (cran-uri "TSP" version))
2498 "1ym97xl2icjpfkrici0wig29w06bb704hp51v7h5liygjlwpkhlc"))))
2499 (properties `((upstream-name . "TSP")))
2500 (build-system r-build-system)
2501 (propagated-inputs `(("r-foreach" ,r-foreach)))
2502 (home-page "https://cran.r-project.org/web/packages/TSP/")
2503 (synopsis "Traveling salesperson problem (TSP)")
2504 (description "This package provides basic infrastructure and some
2505 algorithms for the @dfn{traveling salesperson problem}(TSP) (also known as the
2506 traveling salesman problem).")
2507 (license license:gpl3)))
2509 (define-public r-qap
2516 (uri (cran-uri "qap" version))
2519 "0d2d1ni1camixyi45lfy00f4pn3p063k7bsi8gj5scp6n15mdgb0"))))
2520 (build-system r-build-system)
2521 (native-inputs `(("gfortran" ,gfortran)))
2522 (home-page "https://cran.r-project.org/web/packages/qap/")
2523 (synopsis "Heuristics for the quadratic assignment problem (QAP)")
2524 (description "This package implements heuristics for the @dfn{quadratic
2525 assignment problem} (QAP). Currently only a simulated annealing heuristic is
2527 (license license:gpl3)))
2529 (define-public r-gclus
2536 (uri (cran-uri "gclus" version))
2539 "02ba6zj9bjwrzykamjp40ajynx9xjx9h2i85n0ym0r5lcki4x6fn"))))
2540 (build-system r-build-system)
2541 (propagated-inputs `(("r-cluster" ,r-cluster)))
2542 (home-page "https://cran.r-project.org/web/packages/gclus/")
2543 (synopsis "Clustering graphics")
2544 (description "This package orders panels in scatterplot matrices and
2545 parallel coordinate displays by some merit index. It contains various indices
2546 of merit, ordering functions, and enhanced versions of @code{pairs} and
2547 @code{parcoord} which color panels according to their merit level.")
2548 (license license:gpl2+)))
2550 (define-public r-webshot
2557 (uri (cran-uri "webshot" version))
2560 "07r71zzmggp4jf92x4ws4wg6v1x98vaj01lsar85bnb30n5vx8gh"))))
2561 (build-system r-build-system)
2563 `(("r-jsonlite" ,r-jsonlite)
2564 ("r-magrittr" ,r-magrittr)
2565 ("r-processx" ,r-processx)
2566 ("r-withr" ,r-withr)))
2567 (home-page "https://github.com/wch/webshot/")
2568 (synopsis "Take screenshots of web pages")
2570 "Webshot makes it easy to take screenshots of web pages from within R.
2571 It can also run Shiny applications locally and take screenshots of the
2572 application; and it can render and screenshot static as well as interactive R
2573 Markdown documents.")
2574 (license license:gpl2)))
2576 (define-public r-seriation
2578 (name "r-seriation")
2583 (uri (cran-uri "seriation" version))
2586 "1q6hw4hjw224b4y0dc0j630v2pgj6sn455nwkilb70w8k31hpk92"))))
2587 (build-system r-build-system)
2589 `(("r-cluster" ,r-cluster)
2590 ("r-colorspace" ,r-colorspace)
2591 ("r-dendextend" ,r-dendextend)
2592 ("r-gclus" ,r-gclus)
2593 ("r-gplots" ,r-gplots)
2596 ("r-registry" ,r-registry)
2598 (native-inputs `(("gfortran" ,gfortran)))
2599 (home-page "http://s2.smu.edu/IDA/seriation/")
2600 (synopsis "Infrastructure for ordering objects using seriation")
2602 "This package provides infrastructure for seriation with an
2603 implementation of several seriation/sequencing techniques to reorder matrices,
2604 dissimilarity matrices, and dendrograms. It also provides (optimally)
2605 reordered heatmaps, color images and clustering visualizations like
2606 dissimilarity plots, and visual assessment of cluster tendency plots (VAT and
2608 (license license:gpl3)))
2610 (define-public r-xfun
2617 (uri (cran-uri "xfun" version))
2620 "0zl22fcw90kdvzkjyf6vbmdmn9rz3bl51522fasvmykypffyng4a"))))
2621 (build-system r-build-system)
2622 (home-page "https://github.com/yihui/xfun")
2623 (synopsis "Miscellaneous functions")
2625 "This package provides miscellaneous functions commonly used in other
2626 packages maintained by Yihui Xie.")
2627 (license license:expat)))
2629 (define-public r-utf8
2636 (uri (cran-uri "utf8" version))
2639 "0m0ywg8k3blfiahxvh1i4zn9dksrlc937d2lbza5fc38zjnrrnpn"))))
2640 (build-system r-build-system)
2641 (home-page "https://github.com/patperry/r-utf8")
2642 (synopsis "Unicode text processing")
2644 "This package provides tools to process and print UTF-8 encoded
2645 international text (Unicode). Input, validate, normalize, encode, format, and
2647 (license license:asl2.0)))
2649 (define-public r-pillar
2656 (uri (cran-uri "pillar" version))
2659 "1rzhssprqgam1nq3s0f5rzxhxsq02azcghvxf6k8kmsmddf1n7f8"))))
2660 (build-system r-build-system)
2663 ("r-crayon" ,r-crayon)
2664 ("r-rlang" ,r-rlang)
2665 ("r-utf8" ,r-utf8)))
2666 (home-page "https://github.com/r-lib/pillar")
2667 (synopsis "Coloured formatting for columns")
2669 "This package provides a @code{pillar} generic designed for formatting
2670 columns of data using the full range of colours provided by modern
2672 (license license:gpl3)))
2674 (define-public r-uuid
2681 (uri (cran-uri "uuid" version))
2684 "1gmisd630fc8ybg845hbg13wmm3pk3npaamrh5wqbc1nqd6p0wfx"))))
2685 (build-system r-build-system)
2686 (home-page "http://www.rforge.net/uuid")
2687 (synopsis "Tools for generating and handling of UUIDs")
2689 "This package provides tools for generating and handling of
2690 @dfn{Universally Unique Identifiers} (UUIDs).")
2691 (license license:expat)))
2693 (define-public r-tinytex
2700 (uri (cran-uri "tinytex" version))
2703 "1pg4jfyvandjwz3lmr38pbqi9d045iwkk3xklhsfhhxq6aviq9p7"))))
2704 (build-system r-build-system)
2705 (home-page "https://github.com/yihui/tinytex")
2706 (synopsis "Helper functions for TeX Live and compiling LaTeX documents")
2708 "This package provides helper functions to install and maintain the LaTeX
2709 distribution named TinyTeX, a lightweight, cross-platform, portable, and
2710 easy-to-maintain version of TeX Live. This package also contains helper
2711 functions to compile LaTeX documents, and install missing LaTeX packages
2713 (license license:expat)))
2715 (define-public r-metap
2722 (uri (cran-uri "metap" version))
2725 "03vg0mb6q7j2z0pkxykbak0hcp6dcak7zxs1lw9hswz9kqrq5jhz"))))
2726 (build-system r-build-system)
2728 `(("r-lattice" ,r-lattice)))
2729 (home-page "http://www.dewey.myzen.co.uk/meta/meta.html")
2730 (synopsis "Meta-analysis of significance values")
2732 "The canonical way to perform meta-analysis involves using effect sizes.
2733 When they are not available this package provides a number of methods for
2734 meta-analysis of significance values including the methods of Edgington,
2735 Fisher, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate
2736 published results; and a routine for graphical display.")
2737 (license license:gpl2)))
2739 (define-public r-network
2742 (version "1.13.0.1")
2746 (uri (cran-uri "network" version))
2749 "1bbkbqkqf1d7irfwh08c13c2pfypir1ssvlqrln83irqns1ikdv0"))))
2750 (build-system r-build-system)
2751 (home-page "https://statnet.org/")
2752 (synopsis "Classes for relational data")
2754 "This package provides tools to create and modify network objects. The
2755 @code{network} class can represent a range of relational data types, and
2756 supports arbitrary vertex/edge/graph attributes.")
2757 (license license:gpl2+)))
2759 (define-public r-statnet-common
2761 (name "r-statnet-common")
2766 (uri (cran-uri "statnet.common" version))
2769 "0h3g687214rlycca0fjrpy1lqbqsrginxqhmhl2mb2jinqqxcfgd"))))
2771 `((upstream-name . "statnet.common")))
2772 (build-system r-build-system)
2774 `(("r-coda" ,r-coda)))
2775 (home-page "https://statnet.org")
2776 (synopsis "R scripts and utilities used by the Statnet software")
2777 (description "This package provides non-statistical utilities used by the
2778 software developed by the Statnet Project.")
2779 (license license:gpl3)))
2781 (define-public r-sna
2788 (uri (cran-uri "sna" version))
2791 "1ks8819qvpdfansfqj9p32s1rhvl26frvbi78m4rx1wd1qcv74i2"))))
2792 (build-system r-build-system)
2794 `(("r-network" ,r-network)
2795 ("r-statnet-common" ,r-statnet-common)))
2796 (home-page "https://statnet.org")
2797 (synopsis "Tools for social network analysis")
2799 "This package provides a range of tools for social network analysis,
2800 including node and graph-level indices, structural distance and covariance
2801 methods, structural equivalence detection, network regression, random graph
2802 generation, and 2D/3D network visualization.")
2803 (license license:gpl2+)))
2805 (define-public r-ttr
2812 (uri (cran-uri "TTR" version))
2815 "07r62ngyzjl4aszdxnr3n6bnbcgcap32yhd430jsilicg8n06di1"))))
2816 (properties `((upstream-name . "TTR")))
2817 (build-system r-build-system)
2819 `(("r-curl" ,r-curl)
2822 (native-inputs `(("gfortran" ,gfortran)))
2823 (home-page "https://github.com/joshuaulrich/TTR")
2824 (synopsis "Technical trading rules")
2826 "This package provides functions and data to construct technical trading
2828 (license license:gpl2)))
2830 (define-public r-leaps
2837 (uri (cran-uri "leaps" version))
2840 "11gjmn1azrjw5xlvdb4gknj9985kck9x8zb9np1rnk2smp6pka2m"))))
2841 (build-system r-build-system)
2842 (native-inputs `(("gfortran" ,gfortran)))
2843 (home-page "https://cran.r-project.org/web/packages/leaps/")
2844 (synopsis "Regression subset selection")
2846 "This package provides tools for regression subset selection, including
2847 exhaustive search.")
2848 (license license:gpl2+)))
2850 (define-public r-splus2r
2857 (uri (cran-uri "splus2R" version))
2860 "0xrbj8vxy0pc6hl7m8abv71d3hjw47cl51s7j7priadyqczkq6sz"))))
2861 (properties `((upstream-name . "splus2R")))
2862 (build-system r-build-system)
2863 (native-inputs `(("gfortran" ,gfortran)))
2864 (home-page "https://cran.r-project.org/web/packages/splus2R/")
2865 (synopsis "Supplemental S-PLUS functionality in R")
2867 "Currently there are many functions in S-PLUS that are missing in R. To
2868 facilitate the conversion of S-PLUS packages to R packages, this package
2869 provides some missing S-PLUS functionality in R.")
2870 (license license:gpl2)))
2872 (define-public r-ifultools
2874 (name "r-ifultools")
2879 (uri (cran-uri "ifultools" version))
2882 "0pv2msaa1rmj8csxdclzi2jwg9pfdvh87blj9j3xa3myisglq092"))))
2883 (build-system r-build-system)
2885 `(("r-mass" ,r-mass)
2886 ("r-splus2r" ,r-splus2r)))
2887 (home-page "https://cran.r-project.org/web/packages/ifultools/")
2888 (synopsis "Insightful research tools")
2889 (description "This package provides C code used by the wmtsa, fractal, and
2891 (license license:gpl2)))
2893 (define-public r-sapa
2900 (uri (cran-uri "sapa" version))
2903 "056xlh14dnzq4x7sbp7ff2k61jxy7110a742b502vz549qfrr5ds"))))
2904 (build-system r-build-system)
2906 `(("r-ifultools" ,r-ifultools)
2907 ("r-splus2r" ,r-splus2r)))
2908 (home-page "https://cran.r-project.org/web/packages/sapa/")
2909 (synopsis "Spectral analysis for physical applications")
2910 (description "This package provides software for the book Spectral
2911 Analysis for Physical Applications, Donald B. Percival and Andrew T. Walden,
2912 Cambridge University Press, 1993.")
2913 (license license:gpl2)))
2915 (define-public r-quantmod
2922 (uri (cran-uri "quantmod" version))
2925 "16aldg96z7amp5mr90nb8127yy04gxsihfr26km5p3cx3j117yv0"))))
2926 (build-system r-build-system)
2928 `(("r-curl" ,r-curl)
2932 (home-page "https://cran.r-project.org/web/packages/quantmod/")
2933 (synopsis "Quantitative financial modelling framework")
2934 (description "This package provides a quantitative financial modelling
2935 framework to allow users to specify, build, trade, and analyse quantitative
2936 financial trading strategies.")
2937 (license license:gpl3)))
2939 (define-public r-tseries
2946 (uri (cran-uri "tseries" version))
2949 "14s1glh5zzdvdl05a2z7ymhgf962svxf8xircghg5sc649lb33n0"))))
2950 (build-system r-build-system)
2952 `(("r-quadprog" ,r-quadprog)
2953 ("r-quantmod" ,r-quantmod)
2956 `(("gfortran" ,gfortran)))
2957 (home-page "https://cran.r-project.org/web/packages/tseries/")
2958 (synopsis "Time series analysis and computational finance")
2960 "This package provides functions relating to time series analysis and
2961 computational finance.")
2962 (license license:gpl2)))
2964 (define-public r-wmtsa
2971 (uri (cran-uri "wmtsa" version))
2974 "1q436krz5p1f4a7a7sya6a9rh9x9mi8zzcgq66gbk9w9w4hcqcj6"))))
2975 (build-system r-build-system)
2977 `(("r-ifultools" ,r-ifultools)
2979 ("r-splus2r" ,r-splus2r)))
2980 (home-page "https://cran.r-project.org/web/packages/wmtsa/")
2981 (synopsis "Wavelet methods for time series analysis")
2983 "This package provides software to accompany the book \"Wavelet Methods
2984 for Time Series Analysis\", Donald B. Percival and Andrew T. Walden, Cambridge
2985 University Press, 2000.")
2986 (license license:gpl2)))
2988 (define-public r-tsa
2995 (uri (cran-uri "TSA" version))
2998 "0cm97hwxm6vfgy9mc3kgwq6dnmn86p8a4avnfjbai048qnwrn6hx"))))
2999 (properties `((upstream-name . "TSA")))
3000 (build-system r-build-system)
3002 `(("r-leaps" ,r-leaps)
3003 ("r-locfit" ,r-locfit)
3005 ("r-tseries" ,r-tseries)))
3006 (home-page "http://www.stat.uiowa.edu/~kchan/TSA.htm")
3007 (synopsis "Time series analysis")
3009 "This package contains R functions and datasets detailed in the book
3010 \"Time Series Analysis with Applications in R (second edition)\" by Jonathan
3011 Cryer and Kung-Sik Chan.")
3012 (license license:gpl2+)))
3014 (define-public r-extradistr
3016 (name "r-extradistr")
3021 (uri (cran-uri "extraDistr" version))
3024 "1fg8vjpal33y51iqzglk1yvy46d7js0l0wfbdy698lq8a06hq19p"))))
3025 (properties `((upstream-name . "extraDistr")))
3026 (build-system r-build-system)
3028 `(("r-rcpp" ,r-rcpp)))
3029 (home-page "https://github.com/twolodzko/extraDistr")
3030 (synopsis "Additional univariate and multivariate distributions")
3032 "This package implements density, distribution functions, quantile
3033 functions and random generation functions for a large number of univariate and
3034 multivariate distributions.")
3035 (license license:gpl2)))
3037 (define-public r-fractal
3044 (uri (cran-uri "fractal" version))
3047 "18lr9z0gslvfc3z8vyj3krqj3bfhg60zv1fzinrwwkc4cpk1w7mp"))))
3048 (build-system r-build-system)
3050 `(("r-ifultools" ,r-ifultools)
3053 ("r-scatterplot3d" ,r-scatterplot3d)
3054 ("r-splus2r" ,r-splus2r)
3055 ("r-wmtsa" ,r-wmtsa)))
3056 (home-page "https://cran.r-project.org/web/packages/fractal/")
3057 (synopsis "Fractal time series modeling and analysis")
3059 "This package provides tools for stochastic fractal and deterministic
3060 chaotic time series analysis.")
3061 (license license:gpl2)))
3063 (define-public r-urca
3070 (uri (cran-uri "urca" version))
3073 "1akaqwf3fvvvx4sgfn641fd4sj51s0701pvfl6s5hnz2k0iwh732"))))
3074 (build-system r-build-system)
3075 (propagated-inputs `(("r-nlme" ,r-nlme)))
3076 (native-inputs `(("gfortran" ,gfortran)))
3077 (home-page "https://cran.r-project.org/web/packages/urca/")
3078 (synopsis "Unit root and cointegration tests for time series data")
3080 "This package provides unit root and cointegration tests encountered in
3081 applied econometric analysis.")
3082 (license license:gpl2+)))
3084 (define-public r-cubature
3091 (uri (cran-uri "cubature" version))
3094 "1hd23b8v2kpqp5gr0va8p2q7j8w9rik6ks7zrr4b8mb2mwrakk74"))))
3095 (build-system r-build-system)
3097 `(("r-rcpp" ,r-rcpp)))
3098 (home-page "https://github.com/bnaras/cubature")
3099 (synopsis "Adaptive multivariate integration over hypercubes")
3101 "This package is an R wrapper around the cubature C library for adaptive
3102 multivariate integration over hypercubes. This version provides both
3103 @code{hcubature} and @code{pcubature} routines in addition to a vector
3105 ;; The included cubature C library is released under GPLv2+, but the
3106 ;; wrapper declares the license to be GPLv3+.
3107 (license (list license:gpl2+ license:gpl3+))))
3109 (define-public r-trend
3116 (uri (cran-uri "trend" version))
3119 "06yifqbsvxbmk5gld4z2nnyhf59v8ks5xjwacmb25mv9r6bn388b"))))
3120 (build-system r-build-system)
3122 `(("r-extradistr" ,r-extradistr)))
3124 `(("gfortran" ,gfortran)))
3125 (home-page "https://cran.r-project.org/web/packages/trend/")
3126 (synopsis "Non-parametric trend tests and change-point detection")
3128 "The analysis of environmental data often requires the detection of
3129 trends and change-points. This package includes tests for trend
3130 detection (Cox-Stuart Trend Test, Mann-Kendall Trend Test, (correlated)
3131 Hirsch-Slack Test, partial Mann-Kendall Trend Test, multivariate (multisite)
3132 Mann-Kendall Trend Test, (Seasonal) Sen's slope, partial Pearson and Spearman
3133 correlation trend test), change-point detection (Lanzante's test procedures,
3134 Pettitt's test, Buishand Range Test, Buishand U Test, Standard Normal
3135 Homogeinity Test), detection of non-randomness (Wallis-Moore Phase Frequency
3136 Test, Bartels rank von Neumann's ratio test, Wald-Wolfowitz Test) and the two
3137 sample Robust Rank-Order Distributional Test.")
3138 (license license:gpl3)))
3140 (define-public r-expm
3147 (uri (cran-uri "expm" version))
3150 "1mihl67kvv1xv0figp25jkmwfn4iwkcx15cng2348y8gm6zybw9q"))))
3151 (build-system r-build-system)
3152 (propagated-inputs `(("r-matrix" ,r-matrix)))
3153 (native-inputs `(("gfortran" ,gfortran)))
3154 (home-page "https://r-forge.r-project.org/projects/expm/")
3155 (synopsis "Tools for matrix exponentials and related quantities")
3157 "This package provides tools for the computation of the matrix
3158 exponential, logarithm, square root, and related quantities.")
3159 (license license:gpl2+)))
3161 (define-public r-complexplus
3163 (name "r-complexplus")
3168 (uri (cran-uri "complexplus" version))
3171 "16w9v7d1ckavqmr86l34frr37pkvdn0iqnb17ssb8xaggns5lgqx"))))
3172 (build-system r-build-system)
3174 `(("r-expm" ,r-expm)
3175 ("r-matrix" ,r-matrix)))
3176 (home-page "https://cran.r-project.org/web/packages/complexplus/")
3177 (synopsis "Functions of complex or real variables")
3179 "This package extends several functions to the complex domain, including
3180 the matrix exponential and logarithm, and the determinant.")
3181 (license license:gpl2)))
3183 (define-public r-phontools
3185 (name "r-phontools")
3190 (uri (cran-uri "phonTools" version))
3193 "01i481mhswsys3gpasw9gn6nxkfmi7bz46g5c84m13pg0cv8hxc7"))))
3194 (properties `((upstream-name . "phonTools")))
3195 (build-system r-build-system)
3196 (home-page "http://www.santiagobarreda.com/rscripts.html")
3197 (synopsis "Tools for phonetic and acoustic analyses")
3199 "This package contains tools for the organization, display, and analysis
3200 of the sorts of data frequently encountered in phonetics research and
3201 experimentation, including the easy creation of IPA vowel plots, and the
3202 creation and manipulation of WAVE audio files.")
3203 (license license:bsd-2)))
3212 (uri (cran-uri "np" version))
3215 "17h67a510wh83800ri6g02wvznrlhigxni8shyijz1iaxcpk8k4j"))))
3216 (build-system r-build-system)
3218 `(("r-boot" ,r-boot)
3219 ("r-cubature" ,r-cubature)
3220 ("r-quadprog" ,r-quadprog)
3221 ("r-quantreg" ,r-quantreg)))
3222 (home-page "https://github.com/JeffreyRacine/R-Package-np")
3223 (synopsis "Non-parametric kernel smoothing methods for mixed data types")
3224 (description "This package provides non-parametric (and semi-parametric)
3225 kernel methods that seamlessly handle a mix of continuous, unordered, and
3226 ordered factor data types.")
3227 ;; Any version of the GPL.
3228 (license license:gpl3+)))
3230 (define-public r-powerplus
3232 (name "r-powerplus")
3237 (uri (cran-uri "powerplus" version))
3240 "0ayp6x34hkzgris4j3zbbs0r23n81bhww3wgfyy630ri4sk6brrn"))))
3241 (build-system r-build-system)
3243 `(("r-complexplus" ,r-complexplus)
3246 ("r-matrix" ,r-matrix)
3247 ("r-phontools" ,r-phontools)))
3248 (home-page "https://cran.r-project.org/web/packages/powerplus/")
3249 (synopsis "Exponentiation operations")
3251 "This package provides tools for the computation of matrix and scalar
3253 (license license:gpl2)))
3255 (define-public r-heatmaply
3257 (name "r-heatmaply")
3262 (uri (cran-uri "heatmaply" version))
3265 "03p2caclhfgqgpx3wwck5h06jy3mxgs05gjmwkb7hmwghkjh41jc"))))
3266 (build-system r-build-system)
3268 `(("r-assertthat" ,r-assertthat)
3269 ("r-colorspace" ,r-colorspace)
3270 ("r-dendextend" ,r-dendextend)
3271 ("r-ggplot2" ,r-ggplot2)
3272 ("r-gplots" ,r-gplots)
3273 ("r-htmlwidgets" ,r-htmlwidgets)
3274 ("r-knitr" ,r-knitr) ; needed for vignettes
3275 ("r-magrittr" ,r-magrittr)
3276 ("r-plotly" ,r-plotly)
3277 ("r-rcolorbrewer" ,r-rcolorbrewer)
3278 ("r-reshape2" ,r-reshape2)
3279 ("r-scales" ,r-scales)
3280 ("r-seriation" ,r-seriation)
3281 ("r-viridis" ,r-viridis)
3282 ("r-webshot" ,r-webshot)))
3283 (home-page "https://cran.r-project.org/package=heatmaply")
3284 (synopsis "Interactive cluster heat maps using plotly")
3286 "This package enables you to create interactive cluster heatmaps that can
3287 be saved as a stand-alone HTML file, embedded in R Markdown documents or in a
3288 Shiny app, and made available in the RStudio viewer pane. Hover the mouse
3289 pointer over a cell to show details or drag a rectangle to zoom. A heatmap is
3290 a popular graphical method for visualizing high-dimensional data, in which a
3291 table of numbers is encoded as a grid of colored cells. The rows and columns
3292 of the matrix are ordered to highlight patterns and are often accompanied by
3294 ;; Either version of the license.
3295 (license (list license:gpl2 license:gpl3))))
3297 (define-public r-cgdsr
3304 (uri (cran-uri "cgdsr" version))
3307 "1xyhw7mhmjichr1l6f9y1qvfj9wm87kfbm87ji7lcwf36gxh5g23"))))
3308 (build-system r-build-system)
3310 `(("r-r-methodss3" ,r-r-methodss3)
3311 ("r-r-oo" ,r-r-oo)))
3312 (home-page "https://github.com/cBioPortal/cgdsr")
3313 (synopsis "R-based API for accessing the MSKCC Cancer Genomics Data Server")
3315 "This package provides a basic set of R functions for querying the Cancer
3316 Genomics Data Server (CGDS), hosted by the Computational Biology Center at
3317 Memorial-Sloan-Kettering Cancer Center (MSKCC).")
3318 (license license:lgpl3)))
3320 (define-public r-import
3327 (uri (cran-uri "import" version))
3330 "0blf9539rbfwcmw8zsb4k58slb4pdnc075v34vmyjw752fznhcji"))))
3331 (build-system r-build-system)
3332 (home-page "https://github.com/smbache/import")
3333 (synopsis "Import mechanism for R")
3335 "This is an alternative mechanism for importing objects from packages.
3336 The syntax allows for importing multiple objects from a package with a single
3337 command in an expressive way. The import package bridges some of the gap
3338 between using @code{library} (or @code{require}) and direct (single-object)
3339 imports. Furthermore the imported objects are not placed in the current
3340 environment. It is also possible to import objects from stand-alone @code{.R}
3342 (license license:expat)))
3344 (define-public r-shinyace
3351 (uri (cran-uri "shinyAce" version))
3354 "1hqgszbiv99dibhwr21v21ll4s2hjn3ccqdicsm0z3gk77bh8iyb"))))
3355 (properties `((upstream-name . "shinyAce")))
3356 (build-system r-build-system)
3358 `(("r-shiny" ,r-shiny)
3359 ("r-jsonlite" ,r-jsonlite)))
3360 (home-page "http://cran.r-project.org/web/packages/shinyAce")
3361 (synopsis "Ace editor bindings for Shiny")
3363 "This package provides Ace editor bindings to enable a rich text editing
3364 environment within Shiny.")
3365 (license license:expat)))
3367 (define-public r-radiant-data
3369 (name "r-radiant-data")
3374 (uri (cran-uri "radiant.data" version))
3377 "0mbxfqn79nphii4hb6kxl2wc0w0ra16y378rp2yw9a9926zdb7mb"))
3378 (modules '((guix build utils)))
3381 ;; Delete files that are under CC-NC-SA.
3382 (delete-file-recursively "inst/app/tools/help")
3384 (properties `((upstream-name . "radiant.data")))
3385 (build-system r-build-system)
3387 `(("r-base64enc" ,r-base64enc)
3388 ("r-broom" ,r-broom)
3391 ("r-dplyr" ,r-dplyr)
3394 ("r-ggplot2" ,r-ggplot2)
3395 ("r-gridextra" ,r-gridextra)
3396 ("r-import" ,r-import)
3397 ("r-jsonlite" ,r-jsonlite)
3398 ("r-knitr" ,r-knitr)
3399 ("r-lubridate" ,r-lubridate)
3400 ("r-magrittr" ,r-magrittr)
3401 ("r-markdown" ,r-markdown)
3402 ("r-plotly" ,r-plotly)
3403 ("r-psych" ,r-psych)
3404 ("r-readr" ,r-readr)
3405 ("r-readxl" ,r-readxl)
3406 ("r-rlang" ,r-rlang)
3407 ("r-rmarkdown" ,r-rmarkdown)
3408 ("r-rstudioapi" ,r-rstudioapi)
3409 ("r-scales" ,r-scales)
3410 ("r-shiny" ,r-shiny)
3411 ("r-shinyace" ,r-shinyace)
3412 ("r-tibble" ,r-tibble)
3413 ("r-tidyr" ,r-tidyr)
3414 ("r-writexl" ,r-writexl)))
3415 (home-page "https://github.com/radiant-rstats/radiant.data")
3416 (synopsis "Data menu for Radiant: business analytics using R and Shiny")
3418 "The Radiant Data menu includes interfaces for loading, saving, viewing,
3419 visualizing, summarizing, transforming, and combining data. It also contains
3420 functionality to generate reproducible reports of the analyses conducted in
3422 (license license:agpl3)))
3424 (define-public r-algdesign
3426 (name "r-algdesign")
3431 (uri (cran-uri "AlgDesign" version))
3434 "0bl7mx4dnmkgs2x1fj7cqnrp7jx18mqwxyga0rzlniq12h8mc3fz"))))
3435 (properties `((upstream-name . "AlgDesign")))
3436 (build-system r-build-system)
3437 (home-page "https://github.com/jvbraun/AlgDesign")
3438 (synopsis "Algorithmic experimental design")
3440 "This package provides tools to calculate exact and approximate theory
3441 experimental designs for D, A, and I criteria. Very large designs may be
3442 created. Experimental designs may be blocked or blocked designs created from
3443 a candidate list, using several criteria. The blocking can be done when whole
3444 and within plot factors interact.")
3445 (license license:gpl2+)))
3447 (define-public r-signal
3454 (uri (cran-uri "signal" version))
3457 "1vsxramz5qd9q9s3vlqzmfdpmwl2rhlb2n904zw6f0fg0xxjfq3b"))))
3458 (build-system r-build-system)
3459 (propagated-inputs `(("r-mass" ,r-mass)))
3460 (native-inputs `(("gfortran" ,gfortran)))
3461 (home-page "https://cran.r-project.org/web/packages/signal/")
3462 (synopsis "Signal processing")
3464 "This package provides a set of signal processing functions originally
3465 written for Matlab and GNU Octave. It includes filter generation utilities,
3466 filtering functions, resampling routines, and visualization of filter models.
3467 It also includes interpolation functions.")
3468 (license license:gpl2)))
3470 (define-public r-psych
3477 (uri (cran-uri "psych" version))
3480 "1kzv9nc7rwn1sj1zxd8xrbs6c7qlka7j2c8lsr4f20znkd3qx8gf"))))
3481 (build-system r-build-system)
3483 `(("r-foreign" ,r-foreign)
3484 ("r-lattice" ,r-lattice)
3485 ("r-mnormt" ,r-mnormt)
3486 ("r-nlme" ,r-nlme)))
3487 (home-page "http://cran.r-project.org/web/packages/psych")
3488 (synopsis "Procedures for psychological, psychometric, and personality research")
3490 "This package provides a general purpose toolbox for personality,
3491 psychometric theory and experimental psychology. The functions are primarily
3492 for multivariate analysis and scale construction using factor analysis,
3493 principal component analysis, cluster analysis and reliability analysis,
3494 although others provide basic descriptive statistics. It provides functions
3495 for analyzing data at multiple levels within and between group statistics,
3496 including correlations and factor analysis; functions for simulating and
3497 testing particular item and test structures are included. Several functions
3498 serve as a useful front end for structural equation modeling.")
3499 (license license:gpl2+)))
3501 (define-public r-gsubfn
3508 (uri (cran-uri "gsubfn" version))
3511 "00j6b8b6xsx6v370h220x233rpk6asca78165y3d48jpwvwisdc9"))))
3512 (build-system r-build-system)
3513 (propagated-inputs `(("r-proto" ,r-proto)))
3514 (home-page "http://gsubfn.googlecode.com")
3515 (synopsis "Utilities for strings and function arguments.")
3517 "This package provides @code{gsubfn} which is like @code{gsub} but can
3518 take a replacement function or certain other objects instead of the
3519 replacement string. Matches and back references are input to the replacement
3520 function and replaced by the function output. @code{gsubfn} can be used to
3521 split strings based on content rather than delimiters and for quasi-perl-style
3522 string interpolation. The package also has facilities for translating
3523 formulas to functions and allowing such formulas in function calls instead of
3525 (license license:gpl2+)))
3527 (define-public r-sqldf
3534 (uri (cran-uri "sqldf" version))
3537 "0q12vsb53p2wchgp8wfz5bk08wfnm0jxjrakclj4jyy6x3a7ksff"))))
3538 (build-system r-build-system)
3540 `(("r-chron" ,r-chron)
3542 ("r-gsubfn" ,r-gsubfn)
3543 ("r-proto" ,r-proto)
3544 ("r-rsqlite" ,r-rsqlite)))
3545 (home-page "https://github.com/ggrothendieck/sqldf")
3546 (synopsis "Manipulate R data frames using SQL")
3548 "The @code{sqldf} function is typically passed a single argument which is
3549 an SQL select statement where the table names are ordinary R data frame names.
3550 @code{sqldf} transparently sets up a database, imports the data frames into
3551 that database, performs the SQL statement and returns the result using a
3552 heuristic to determine which class to assign to each column of the returned
3553 data frame. The @code{sqldf} or @code{read.csv.sql} functions can also be
3554 used to read filtered files into R even if the original files are larger than
3555 R itself can handle.")
3556 (license license:gpl2)))
3558 (define-public r-abind
3565 (uri (cran-uri "abind" version))
3568 "0b1zd8jbnl6l292cr9rb50m09fy3ylxvzkpgi5lfb1nbzddcwfis"))))
3569 (build-system r-build-system)
3570 (home-page "https://cran.r-project.org/web/packages/abind/")
3571 (synopsis "Combine multidimensional arrays")
3573 "This package provides tools to combine multidimensional arrays into a
3574 single array. This is a generalization of @code{cbind} and @code{rbind}. It
3575 works with vectors, matrices, and higher-dimensional arrays. It also provides
3576 the functions @code{adrop}, @code{asub}, and @code{afill} for manipulating,
3577 extracting and replacing data in arrays.")
3578 (license license:lgpl2.0+)))
3580 (define-public r-prroc
3587 (uri (cran-uri "PRROC" version))
3590 "1m28h8pcd78049lz2qixhkcr9h5b3jik3maqzfbvq9y58z71i4a7"))))
3591 (properties `((upstream-name . "PRROC")))
3592 (build-system r-build-system)
3593 (home-page "https://cran.r-project.org/web/packages/PRROC/")
3594 (synopsis "Precision-Recall and ROC curves for weighted and unweighted data")
3596 "This package computes the areas under the @dfn{precision-recall} (PR)
3597 and ROC curve for weighted (e.g. soft-labeled) and unweighted data. In
3598 contrast to other implementations, the interpolation between points of the PR
3599 curve is done by a non-linear piecewise function. In addition to the areas
3600 under the curves, the curves themselves can also be computed and plotted by a
3601 specific S3-method.")
3602 (license license:gpl3)))
3604 (define-public r-vim
3611 (uri (cran-uri "VIM" version))
3614 "1vjcs5wvjv94ln01d94h9rs4j50d3ky4n26mm3prgh13raylrmnd"))))
3615 (properties `((upstream-name . "VIM")))
3616 (build-system r-build-system)
3619 ("r-colorspace" ,r-colorspace)
3620 ("r-data-table" ,r-data-table)
3621 ("r-e1071" ,r-e1071)
3622 ("r-laeken" ,r-laeken)
3626 ("r-robustbase" ,r-robustbase)
3629 (home-page "https://github.com/alexkowa/VIM")
3630 (synopsis "Visualization and imputation of missing values")
3632 "This package provides tools for the visualization of missing and/or
3633 imputed values are introduced, which can be used for exploring the data and
3634 the structure of the missing and/or imputed values. Depending on this
3635 structure of the missing values, the corresponding methods may help to
3636 identify the mechanism generating the missing values and allows to explore the
3637 data including missing values. In addition, the quality of imputation can be
3638 visually explored using various univariate, bivariate, multiple and
3639 multivariate plot methods.")
3640 (license license:gpl2+)))
3642 (define-public r-fnn
3649 (uri (cran-uri "FNN" version))
3652 "1kncmiaraq1mrykb9fj3fsxswabk3l71fnp1vks0x9aay5xfk8mj"))))
3653 (properties `((upstream-name . "FNN")))
3654 (build-system r-build-system)
3655 (home-page "https://cran.r-project.org/web/packages/FNN")
3656 (synopsis "Fast nearest neighbor search algorithms and applications")
3658 "This package provides cover-tree and kd-tree fast k-nearest neighbor
3659 search algorithms. Related applications including KNN classification,
3660 regression and information measures are implemented.")
3661 ;; The DESCRIPTION file erroneously states that GPL version 2.1 or
3662 ;; later can be used.
3663 (license license:gpl2+)))
3665 (define-public r-smoother
3672 (uri (cran-uri "smoother" version))
3675 "0nqr1bvlr5bnasqg74zmknjjl4x28kla9h5cxpga3kq5z215pdci"))))
3676 (build-system r-build-system)
3678 `(("r-ttr" ,r-ttr)))
3679 (home-page "http://cran.r-project.org/web/packages/smoother")
3680 (synopsis "Functions relating to the smoothing of numerical data")
3682 "This package provides a collection of methods for smoothing numerical
3683 data, commencing with a port of the Matlab gaussian window smoothing function.
3684 In addition, several functions typically used in smoothing of financial data
3686 (license license:gpl2)))
3688 (define-public r-riverplot
3690 (name "r-riverplot")
3695 (uri (cran-uri "riverplot" version))
3698 "0q1icpny8nkxyjhawyjzwrw8qlz0ayn2xyrsqrm4vkxyv6c9xk8z"))))
3699 (build-system r-build-system)
3700 (home-page "https://logfc.wordpress.com")
3701 (synopsis "Sankey or ribbon plots")
3703 "Sankey plots are a type of diagram that is convenient to illustrate how
3704 flow of information, resources etc. separates and joins, much like observing
3705 how rivers split and merge. For example, they can be used to compare
3706 different clusterings. This package provides an implementation of Sankey
3708 (license license:gpl2+)))
3710 (define-public r-dyn
3717 (uri (cran-uri "dyn" version))
3720 "16fqv9k7yxdgybwzafjkyqm16qpgqz13lcjpi6a1nc8xbzlzh0gb"))))
3721 (build-system r-build-system)
3723 `(("r-zoo" ,r-zoo)))
3724 (home-page "https://cran.r-project.org/web/packages/dyn")
3725 (synopsis "Time series regression")
3727 "This package provides the dyn class interfaces @code{ts}, @code{irts},
3728 @code{zoo} and @code{zooreg} time series classes to @code{lm}, @code{glm},
3729 @code{loess}, @code{quantreg::rq}, @code{MASS::rlm},
3730 @code{MCMCpack::MCMCregress()}, @code{quantreg::rq()},
3731 @code{randomForest::randomForest()} and other regression functions, allowing
3732 those functions to be used with time series including specifications that may
3733 contain lags, diffs and missing values.")
3735 (license license:gpl2+)))
3737 (define-public r-catdap
3744 (uri (cran-uri "catdap" version))
3747 "0i877l61f6c75pczi235rzci67w29zv1d7z5zn5p5ymndclvlpl2"))))
3748 (build-system r-build-system)
3750 `(("gfortran" ,gfortran)))
3751 (home-page "https://cran.r-project.org/web/packages/catdap/")
3752 (synopsis "Tools for categorical data analysis")
3754 "This package provides functions for analyzing multivariate data.
3755 Dependencies of the distribution of the specified variable (response
3756 variable) to other variables (explanatory variables) are derived and
3757 evaluated by the @dfn{Akaike Information Criterion} (AIC).")
3758 (license license:gpl2+)))
3760 (define-public r-arules
3767 (uri (cran-uri "arules" version))
3770 "0glfqgxr87900kigmkby2ff7qrjvd6aq595q85y056i5ckjcp615"))))
3771 (build-system r-build-system)
3773 `(("r-matrix" ,r-matrix)))
3774 (home-page "https://github.com/mhahsler/arules")
3775 (synopsis "Mining association rules and frequent itemsets")
3777 "This package provides an infrastructure for representing, manipulating
3778 and analyzing transaction data and patterns (frequent itemsets and association rules).
3779 It also provides C implementations of the association mining algorithms Apriori
3781 (license license:gpl3)))
3783 (define-public r-parsedate
3785 (name "r-parsedate")
3790 (uri (cran-uri "parsedate" version))
3793 "0mg7hbm3903iwvmpn51gjpaaq03rsp72hjb1g8h5g84r81iha002"))))
3794 (build-system r-build-system)
3795 (home-page "https://github.com/gaborcsardi/parsedate")
3797 "Recognize and parse dates in various formats")
3799 "This package provides three functions for dealing with dates:
3800 @code{parse_iso_8601} recognizes and parses all valid ISO 8601 date and
3801 time formats, @code{parse_date} parses dates in unspecified formats,
3802 and @code{format_iso_8601} formats a date in ISO 8601 format.")
3803 (license license:gpl2)))
3805 (define-public r-abc-data
3812 (uri (cran-uri "abc.data" version))
3815 "1bv1n68ah714ws58cf285n2s2v5vn7382lfjca4jxph57lyg8hmj"))))
3816 (properties `((upstream-name . "abc.data")))
3817 (build-system r-build-system)
3818 (home-page "https://cran.r-project.org/web/packages/abc.data/")
3819 (synopsis "Data for Approximate Bayesian Computation (ABC) package")
3821 "This package contains data which are used by functions of the abc
3822 package which implements several @dfn{Approximate Bayesian Computation} (ABC)
3823 algorithms for performing parameter estimation, model selection, and
3825 (license license:gpl3+)))
3827 (define-public r-abc
3834 (uri (cran-uri "abc" version))
3837 "0ngzaaz2y2s03fhngvwipmy4kq38xrmyddaz6a6l858rxvadrlhb"))))
3838 (build-system r-build-system)
3840 `(("r-abc-data" ,r-abc-data)
3841 ("r-locfit" ,r-locfit)
3844 ("r-quantreg" ,r-quantreg)))
3845 (home-page "https://cran.r-project.org/web/packages/abc/")
3846 (synopsis "Tools for Approximate Bayesian Computation (ABC)")
3848 "This package implements several @dfn{Approximate Bayesian
3849 Computation} (ABC) algorithms for performing parameter estimation, model
3850 selection, and goodness-of-fit. Cross-validation tools are also available for
3851 measuring the accuracy of ABC estimates, and to calculate the
3852 misclassification probabilities of different models.")
3853 (license license:gpl3+)))
3855 (define-public r-zip
3862 (uri (cran-uri "zip" version))
3865 "0rgr9pcdhdq3k8n29h2ircp3ri1ibhrx81gja1y7331v15xyrabg"))))
3866 (build-system r-build-system)
3867 (home-page "https://github.com/gaborcsardi/zip")
3868 (synopsis "Cross-platform Zip compression")
3870 "This package provides a cross-platform Zip compression library for R.
3871 It is a replacement for the @code{zip} function, that does not require any
3872 additional external tools on any platform.")
3873 (license license:cc0)))
3875 (define-public r-openxlsx
3882 (uri (cran-uri "openxlsx" version))
3885 "1n7z22pm78xa77fvn77kdn68az6xzxk36y11sqf0w6h6adri4yxb"))))
3886 (build-system r-build-system)
3888 `(("r-rcpp" ,r-rcpp)
3890 (home-page "https://github.com/awalker89/openxlsx")
3891 (synopsis "Read, write and edit XLSX files")
3893 "This package simplifies the creation of Excel @code{.xlsx} files by
3894 providing a high level interface to writing, styling and editing worksheets.
3895 Through the use of Rcpp, read/write times are comparable to the @code{xlsx}
3896 and @code{XLConnect} packages with the added benefit of removing the
3897 dependency on Java.")
3898 (license license:gpl3)))
3900 (define-public r-rio
3907 (uri (cran-uri "rio" version))
3910 "158xg3vj0glk3fslwi6fywwmfym2b6kn3fdmjligdfy5lf68khix"))))
3911 (build-system r-build-system)
3913 `(("r-curl" ,r-curl)
3914 ("r-data-table" ,r-data-table)
3915 ("r-foreign" ,r-foreign)
3916 ("r-haven" ,r-haven)
3917 ("r-openxlsx" ,r-openxlsx)
3918 ("r-readxl" ,r-readxl)
3919 ("r-tibble" ,r-tibble)))
3920 (home-page "https://github.com/leeper/rio")
3921 (synopsis "Swiss-army knife for data I/O")
3923 "This package provides streamlined data import and export infrastructure
3924 by making assumptions that the user is probably willing to make: @code{import}
3925 and @code{export} determine the data structure from the file extension,
3926 reasonable defaults are used for data import and export (e.g.,
3927 @code{stringsAsFactors=FALSE}), web-based import is natively
3928 supported (including from SSL/HTTPS), compressed files can be read directly
3929 without explicit decompression, and fast import packages are used where
3930 appropriate. An additional convenience function, @code{convert}, provides a
3931 simple method for converting between file types.")
3932 (license license:gpl2)))
3934 (define-public r-maptools
3941 (uri (cran-uri "maptools" version))
3944 "075lmb3b62171cw2dg8fv1vwmvfzg39r1ji7jwb8s5k9dz88ry1v"))))
3945 (build-system r-build-system)
3947 `(("r-foreign" ,r-foreign)
3948 ("r-lattice" ,r-lattice)
3950 (home-page "http://r-forge.r-project.org/projects/maptools/")
3951 (synopsis "Tools for reading and handling spatial objects")
3953 "This package provides a set of tools for manipulating and reading
3954 geographic data, in particular ESRI Shapefiles. It includes binary access to
3955 GSHHG shoreline files. The package also provides interface wrappers for
3956 exchanging spatial objects with other R packages.")
3957 ;; The C source files from shapelib are released under the Expat license.
3958 ;; The R code is released under GPL version 2 or later.
3959 (license (list license:gpl2+
3962 (define-public r-later
3969 (uri (cran-uri "later" version))
3972 "04j2phymxgkk4hv9pfa5w3s98w5d7fvm11blrdhxmray4n618msw"))))
3973 (build-system r-build-system)
3977 ("r-rlang" ,r-rlang)))
3978 (home-page "https://github.com/r-lib/later")
3979 (synopsis "Utilities for delaying function execution")
3981 "This package provides tools to execute arbitrary R or C functions some
3982 time after the current time, after the R execution stack has emptied.")
3983 (license license:gpl2+)))
3985 (define-public r-promises
3992 (uri (cran-uri "promises" version))
3995 "0n2mlv6bvfb4yhgcml696l9vkbw21pz0smqylivr606z99rwgny2"))))
3996 (build-system r-build-system)
3998 `(("r-later" ,r-later)
3999 ("r-magrittr" ,r-magrittr)
4002 ("r-rlang" ,r-rlang)))
4003 (home-page "https://rstudio.github.io/promises")
4004 (synopsis "Abstractions for promise-based asynchronous programming")
4006 "This package provides fundamental abstractions for doing asynchronous
4007 programming in R using promises. Asynchronous programming is useful for
4008 allowing a single R process to orchestrate multiple tasks in the background
4009 while also attending to something else. Semantics are similar to JavaScript
4010 promises, but with a syntax that is idiomatic R.")
4011 (license license:expat)))
4013 (define-public r-dosnow
4020 (uri (cran-uri "doSNOW" version))
4023 "13ir4a8252h4yvp5ir9xnwack1kn58i4ny6sf2qdc12zspn3850n"))))
4024 (properties `((upstream-name . "doSNOW")))
4025 (build-system r-build-system)
4027 `(("r-foreach" ,r-foreach)
4028 ("r-iterators" ,r-iterators)
4029 ("r-snow" ,r-snow)))
4030 (home-page "https://cran.r-project.org/web/packages/doSNOW")
4031 (synopsis "Foreach parallel adaptor for the snow package")
4033 "This package provides a parallel backend for the @code{%dopar%} function
4034 using the @code{snow} package.")
4035 (license license:gpl2)))
4037 (define-public r-snowfall
4040 (version "1.84-6.1")
4043 (uri (cran-uri "snowfall" version))
4045 (base32 "13941rlw1jsdjsndp1plzj1cq5aqravizkrqn6l25r9im7rnsi2w"))))
4046 (build-system r-build-system)
4048 `(("r-snow" ,r-snow)))
4049 (home-page "http://cran.r-project.org/web/packages/snowfall/")
4050 (synopsis "Easier cluster computing")
4051 (description "This package is a usability wrapper around snow for easier
4052 development of parallel R programs. This package offers e.g. extended error
4053 checks, and additional functions. All functions work in sequential mode, too,
4054 if no cluster is present or wished. The package is also designed as connector
4055 to the cluster management tool @code{sfCluster}, but can also used without
4057 (license license:gpl2+)))
4059 (define-public r-codedepends
4061 (name "r-codedepends")
4066 (uri (cran-uri "CodeDepends" version))
4069 "03p82s0abca2jimzqvxdzykfzca7c7fhm5xsjxybcksr4gggr5sc"))))
4070 (properties `((upstream-name . "CodeDepends")))
4071 (build-system r-build-system)
4073 `(("r-codetools" ,r-codetools)
4075 (home-page "http://cran.r-project.org/web/packages/CodeDepends")
4076 (synopsis "Analysis of R code for reproducible research and code comprehension")
4078 "This package provides tools for analyzing R expressions or blocks of
4079 code and determining the dependencies between them. It focuses on R scripts,
4080 but can be used on the bodies of functions. There are many facilities
4081 including the ability to summarize or get a high-level view of code,
4082 determining dependencies between variables, code improvement suggestions.")
4083 ;; Any version of the GPL
4084 (license (list license:gpl2+ license:gpl3+))))
4086 (define-public r-rappdirs
4093 (uri (cran-uri "rappdirs" version))
4096 "0ji6sg3bdn5gazkq14xmmcq7jnbsyxw4lzmmbgv6526j2vn93n1g"))))
4097 (build-system r-build-system)
4098 (home-page "https://cran.r-project.org/web/packages/rappdirs/")
4099 (synopsis "Determine where to save data, caches, and logs")
4101 "This package provides an easy way to determine which directories on the
4102 user's computer should be used to save data, caches and logs. It is a port of
4103 Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.")
4104 (license license:expat)))
4106 (define-public r-learnr
4113 (uri (cran-uri "learnr" version))
4116 "0jbk0g6fkw7zs8ykzhsvh9vvz8xmc4v03bqzjsa5mmpxpqan5vx5"))))
4117 (build-system r-build-system)
4119 `(("r-evaluate" ,r-evaluate)
4120 ("r-htmltools" ,r-htmltools)
4121 ("r-htmlwidgets" ,r-htmlwidgets)
4122 ("r-jsonlite" ,r-jsonlite)
4123 ("r-knitr" ,r-knitr)
4124 ("r-markdown" ,r-markdown)
4125 ("r-rappdirs" ,r-rappdirs)
4126 ("r-rmarkdown" ,r-rmarkdown)
4127 ("r-rprojroot" ,r-rprojroot)
4128 ("r-shiny" ,r-shiny)
4129 ("r-withr" ,r-withr)))
4130 (home-page "https://rstudio.github.io/learnr/")
4131 (synopsis "Interactive tutorials for R")
4133 "This package provides tools to create interactive tutorials using R
4134 Markdown. Use a combination of narrative, figures, videos, exercises, and
4135 quizzes to create self-paced tutorials for learning about R and R packages.")
4136 (license license:asl2.0)))
4138 (define-public r-analytics
4140 (name "r-analytics")
4145 (uri (cran-uri "analytics" version))
4148 "1jkdjqc3fnvvsgi6x9ncf36rxzq0a55cmgkcv92mfmpcramg2lk6"))))
4149 (build-system r-build-system)
4152 ("r-cluster" ,r-cluster)
4153 ("r-fractal" ,r-fractal)
4154 ("r-lmtest" ,r-lmtest)
4157 ("r-powerplus" ,r-powerplus)
4158 ("r-robust" ,r-robust)
4159 ("r-trend" ,r-trend)
4161 ("r-urca" ,r-urca)))
4162 (home-page "https://cran.r-project.org/web/packages/analytics/")
4163 (synopsis "Collection of data analysis tools")
4165 "This package is a collection of data analysis tools. It includes tools
4166 for regression outlier detection in a fitted linear model, stationary
4167 bootstrap using a truncated geometric distribution, a comprehensive test for
4168 weak stationarity, column means by group, weighted biplots, and a heuristic to
4169 obtain a better initial configuration in non-metric MDS.")
4170 (license license:gpl2)))
4172 (define-public r-reticulate
4174 (name "r-reticulate")
4179 (uri (cran-uri "reticulate" version))
4182 "0zwb4ikf021nw7axdn7qlr6bq4xkph3anfy314idkspy1iil4nmr"))))
4183 (build-system r-build-system)
4184 (inputs `(("python" ,python)))
4186 `(("r-jsonlite" ,r-jsonlite)
4187 ("r-matrix" ,r-matrix)
4188 ("r-rcpp" ,r-rcpp)))
4189 (home-page "https://github.com/rstudio/reticulate")
4190 (synopsis "R interface to Python")
4192 "This package provides an interface from R to Python modules, classes,
4193 and functions. When calling into Python, R data types are automatically
4194 converted to their equivalent Python types. When values are returned from
4195 Python to R they are converted back to R types.")
4196 (license license:asl2.0)))
4198 (define-public r-bibtex
4205 (uri (cran-uri "bibtex" version))
4208 "0wl3925ryd54g1nv3ncwllc493d39dpgy5md61940h69c0van1hz"))))
4209 (build-system r-build-system)
4210 (propagated-inputs `(("r-stringr" ,r-stringr)))
4211 (home-page "https://github.com/romainfrancois/bibtex")
4212 (synopsis "Bibtex parser")
4213 (description "This package provides a utility for R to parse a bibtex
4215 (license license:gpl2+)))
4217 (define-public r-ggseqlogo
4219 (name "r-ggseqlogo")
4224 (uri (cran-uri "ggseqlogo" version))
4227 "13q6kcpxrqxqbji889fx63p0nsi08lk5yymkchig75r5k1d18ky1"))))
4228 (build-system r-build-system)
4229 (propagated-inputs `(("r-ggplot2" ,r-ggplot2)))
4230 (home-page "https://github.com/omarwagih/ggseqlogo")
4231 (synopsis "ggplot2 extension for drawing genetic sequence logos")
4233 "The range of functions provided by this package makes it possible to
4234 draw highly versatile genomic sequence logos. Features include, but are not
4235 limited to, modifying colour schemes and fonts used to draw the logo,
4236 generating multiple logo plots, and aiding the visualisation with annotations.
4237 Sequence logos can easily be combined with other ggplot2 plots.")
4238 ;; Unspecified version of the LGPL.
4239 (license license:lgpl3+)))
4241 (define-public r-ggsci
4248 (uri (cran-uri "ggsci" version))
4251 "0g73x6grbka7ahjh6z23m3wrcifp5rdfdiasbl8lq4sp6rplxwaa"))))
4252 (build-system r-build-system)
4254 `(("r-ggplot2" ,r-ggplot2)
4255 ("r-scales" ,r-scales)))
4256 (home-page "https://nanx.me/ggsci/")
4257 (synopsis "Scientific journal and sci-fi themed color palettes for ggplot2")
4259 "This package provides a collection of ggplot2 color palettes inspired by
4260 plots in scientific journals, data visualization libraries, science fiction
4261 movies, and TV shows.")
4262 (license license:gpl3)))
4264 (define-public r-ggsignif
4271 (uri (cran-uri "ggsignif" version))
4274 "1rn58d7pb3axk6chiihryykrzw76adaa2yiafq4d0j6qbhax78f7"))))
4275 (build-system r-build-system)
4277 `(("r-ggplot2" ,r-ggplot2)))
4278 (home-page "https://github.com/const-ae/ggsignif")
4279 (synopsis "Significance brackets for ggplot2")
4281 "Enrich your ggplots with group-wise comparisons. This package provides
4282 an easy way to indicate if two groups are significantly different. Commonly
4283 this is shown by a bracket on top connecting the groups of interest which
4284 itself is annotated with the level of significance. The package provides a
4285 single layer that takes the groups for comparison and the test as arguments
4286 and adds the annotation to the plot.")
4287 (license license:gpl3)))
4289 (define-public r-ggpubr
4296 (uri (cran-uri "ggpubr" version))
4299 "110ny8p41kmbz0a5rl0mv9cqpjkx6yr3ybflp1r0fmcvhwv7cr3i"))))
4300 (build-system r-build-system)
4302 `(("r-cowplot" ,r-cowplot)
4303 ("r-dplyr" ,r-dplyr)
4304 ("r-ggplot2" ,r-ggplot2)
4305 ("r-ggrepel" ,r-ggrepel)
4306 ("r-ggsci" ,r-ggsci)
4307 ("r-ggsignif" ,r-ggsignif)
4308 ("r-gridextra" ,r-gridextra)
4309 ("r-magrittr" ,r-magrittr)
4310 ("r-purrr" ,r-purrr)
4311 ("r-scales" ,r-scales)
4312 ("r-tidyr" ,r-tidyr)))
4313 (home-page "http://www.sthda.com/english/rpkgs/ggpubr")
4314 (synopsis "ggplot2-based publication-ready plots")
4316 "The ggplot2 package is an excellent and flexible package for elegant
4317 data visualization in R. However the default generated plots require some
4318 formatting before we can send them for publication. The ggpubr package
4319 provides some easy-to-use functions for creating and customizing ggplot2-based
4320 publication-ready plots.")
4321 (license license:gpl2)))
4323 (define-public r-ellipse
4330 (uri (cran-uri "ellipse" version))
4333 "0g82vc51m3c1k0hnpp2zla6amxxgk2mmkl8ssnsc49jv3599r6hs"))))
4334 (build-system r-build-system)
4335 (home-page "https://cran.r-project.org/web/packages/ellipse/")
4336 (synopsis "Functions for drawing ellipses and ellipse-like confidence regions")
4338 "This package contains various routines for drawing ellipses and
4339 ellipse-like confidence regions, implementing the plots described in Murdoch
4340 and Chow (1996), A graphical display of large correlation matrices, The
4341 American Statistician 50, 178-180. There are also routines implementing the
4342 profile plots described in Bates and Watts (1988), Nonlinear Regression
4343 Analysis and its Applications.")
4344 (license license:gpl2+)))
4346 (define-public r-flashclust
4348 (name "r-flashclust")
4353 (uri (cran-uri "flashClust" version))
4356 "0l4lpz451ll7f7lfxmb7ds24ppzhfg1c3ypvydglcc35p2dq99s8"))))
4357 (properties `((upstream-name . "flashClust")))
4358 (build-system r-build-system)
4359 (native-inputs `(("gfortran" ,gfortran)))
4360 (home-page "https://cran.r-project.org/web/packages/flashClust/")
4361 (synopsis "Implementation of optimal hierarchical clustering")
4363 "This package provides a fast implementation of hierarchical
4365 (license license:gpl2+)))
4367 (define-public r-factominer
4369 (name "r-factominer")
4374 (uri (cran-uri "FactoMineR" version))
4377 "1h20hydav6l2b7bngqw1av4l5rrh0wk58nhailga1f4qw9lrv259"))))
4378 (properties `((upstream-name . "FactoMineR")))
4379 (build-system r-build-system)
4382 ("r-cluster" ,r-cluster)
4383 ("r-ellipse" ,r-ellipse)
4384 ("r-flashclust" ,r-flashclust)
4385 ("r-lattice" ,r-lattice)
4386 ("r-leaps" ,r-leaps)
4388 ("r-scatterplot3d" ,r-scatterplot3d)))
4389 (home-page "http://factominer.free.fr")
4390 (synopsis "Multivariate exploratory data analysis and data mining")
4392 "This package provides exploratory data analysis methods to summarize,
4393 visualize and describe datasets. The main principal component methods are
4394 available, those with the largest potential in terms of applications:
4395 principal component analysis (PCA) when variables are quantitative,
4396 correspondence analysis (CA) and multiple correspondence analysis (MCA) when
4397 variables are categorical, Multiple Factor Analysis when variables are
4398 structured in groups, etc. and hierarchical cluster analysis.")
4399 (license license:gpl2+)))
4401 (define-public r-factoextra
4403 (name "r-factoextra")
4408 (uri (cran-uri "factoextra" version))
4411 "1l6m8k7qhdw8ndar8nhmym0lfyd1i2iszl1cicjax0vq23ss6xw1"))))
4412 (build-system r-build-system)
4414 `(("r-abind" ,r-abind)
4415 ("r-cluster" ,r-cluster)
4416 ("r-dendextend" ,r-dendextend)
4417 ("r-factominer" ,r-factominer)
4418 ("r-ggplot2" ,r-ggplot2)
4419 ("r-ggpubr" ,r-ggpubr)
4420 ("r-ggrepel" ,r-ggrepel)
4421 ("r-reshape2" ,r-reshape2)
4422 ("r-tidyr" ,r-tidyr)))
4423 (home-page "http://www.sthda.com/english/rpkgs/factoextra")
4424 (synopsis "Extract and visualize the results of multivariate data analyses")
4426 "This package provides some easy-to-use functions to extract and
4427 visualize the output of multivariate data analyses, including
4428 @code{PCA} (Principal Component Analysis), @code{CA} (Correspondence
4429 Analysis), @code{MCA} (Multiple Correspondence Analysis), @code{FAMD} (Factor
4430 Analysis of Mixed Data), @code{MFA} (Multiple Factor Analysis) and
4431 @code{HMFA} (Hierarchical Multiple Factor Analysis) functions from different R
4432 packages. It contains also functions for simplifying some clustering analysis
4433 steps and provides ggplot2-based elegant data visualization.")
4434 (license license:gpl2)))
4436 (define-public r-nbclust
4443 (uri (cran-uri "NbClust" version))
4446 "1vwb48zy6ln1ddpqmfngii1i80n8qmqyxnzdp6gbaq96lakl3w3c"))))
4447 (properties `((upstream-name . "NbClust")))
4448 (build-system r-build-system)
4449 (home-page "https://sites.google.com/site/malikacharrad/research/nbclust-package")
4450 (synopsis "Determine the best number of clusters in a data set")
4452 "NbClust provides 30 indexes for determining the optimal number of
4453 clusters in a data set and offers the best clustering scheme from different
4454 results to the user.")
4455 (license license:gpl2)))
4457 (define-public r-hdf5r
4464 (uri (cran-uri "hdf5r" version))
4467 "1s6p4cj909kc635fh5xpl87bqlcdj3dn3r1wk5g40abimk2b0pva"))))
4468 (build-system r-build-system)
4473 `(("r-bit64" ,r-bit64)
4475 (home-page "https://hhoeflin.github.io/hdf5r")
4476 (synopsis "Interface to the HDF5 binary data format")
4478 "HDF5 is a data model, library and file format for storing and managing
4479 large amounts of data. This package provides a nearly feature complete,
4480 object oriented wrapper for the HDF5 API using R6 classes. Additionally,
4481 functionality is added so that HDF5 objects behave very similar to their
4482 corresponding R counterparts.")
4483 (license license:asl2.0)))
4485 (define-public r-itertools
4487 (name "r-itertools")
4492 (uri (cran-uri "itertools" version))
4495 "1ls5biiva10pb1dj3ph4griykb9vam02hkrdmlr5a5wf660hg6xn"))))
4496 (build-system r-build-system)
4498 `(("r-iterators" ,r-iterators)))
4499 (home-page "https://cran.r-project.org/web/packages/itertools/")
4500 (synopsis "Iterator tools")
4502 "This package provides various tools for creating iterators, many
4503 patterned after functions in the Python @code{itertools} module, and others
4504 patterned after functions in the snow package.")
4505 (license license:gpl2)))
4507 (define-public r-writexl
4514 (uri (cran-uri "writexl" version))
4517 "0r2v12dc4zqmr1agp6vbw0fc48i278018684x84psjjqfmnv14cf"))))
4518 (build-system r-build-system)
4519 (inputs `(("zlib" ,zlib)))
4520 (home-page "https://github.com/ropensci/writexl")
4521 (synopsis "Export data frames to xlsx format")
4523 "This package provides a data frame to xlsx exporter based on
4525 (license license:bsd-2)))
4527 (define-public r-biasedurn
4529 (name "r-biasedurn")
4534 (uri (cran-uri "BiasedUrn" version))
4537 "13i2lgfnjhlbbm2yxfc2l5hswqw6x03pwba5csjmirv8kpjw4xr3"))))
4538 (properties `((upstream-name . "BiasedUrn")))
4539 (build-system r-build-system)
4540 (home-page "https://cran.r-project.org/web/packages/BiasedUrn/")
4541 (synopsis "Biased Urn model distributions")
4543 "This package provides statistical models of biased sampling in the form
4544 of univariate and multivariate noncentral hypergeometric distributions,
4545 including Wallenius' noncentral hypergeometric distribution and Fisher's
4546 noncentral hypergeometric distribution (also called extended hypergeometric
4548 (license license:gpl3)))
4550 (define-public r-goplot
4557 (uri (cran-uri "GOplot" version))
4560 "1y8dv0kbzpr9za91njw0x233vx5d13vqml9hmpddcyi9s6va5nix"))))
4561 (properties `((upstream-name . "GOplot")))
4562 (build-system r-build-system)
4564 `(("r-ggdendro" ,r-ggdendro)
4565 ("r-ggplot2" ,r-ggplot2)
4566 ("r-gridextra" ,r-gridextra)
4567 ("r-rcolorbrewer" ,r-rcolorbrewer)))
4568 (home-page "https://github.com/wencke/wencke.github.io")
4569 (synopsis "Visualization of functional analysis data")
4571 "This package provides an implementation of multilayered visualizations
4572 for enhanced graphical representation of functional analysis data. It
4573 combines and integrates omics data derived from expression and functional
4574 annotation enrichment analyses. Its plotting functions have been developed
4575 with an hierarchical structure in mind: starting from a general overview to
4576 identify the most enriched categories (modified bar plot, bubble plot) to a
4577 more detailed one displaying different types of relevant information for the
4578 molecules in a given set of categories (circle plot, chord plot, cluster plot,
4579 Venn diagram, heatmap).")
4580 (license license:gpl2)))
4582 (define-public r-getopt
4589 (uri (cran-uri "getopt" version))
4592 "13p35lbpy7i578752fa71sbfvcsqw5qfa9p6kf8b5m3c5p9i4v1x"))))
4593 (build-system r-build-system)
4594 (home-page "https://github.com/trevorld/getopt")
4595 (synopsis "Command-line option processor for R")
4597 "This package is designed to be used with Rscript to write shebang
4598 scripts that accept short and long options. Many users will prefer to
4599 use the packages @code{optparse} or @code{argparse} which add extra
4600 features like automatically generated help options and usage texts,
4601 support for default values, positional argument support, etc.")
4602 (license license:gpl2+)))
4604 (define-public r-findpython
4606 (name "r-findpython")
4611 (uri (cran-uri "findpython" version))
4614 "1y08jk2ffmkf9zpwiz2xymjhfwqvls9vzsnq62v278ghw9d571jl"))))
4615 (build-system r-build-system)
4616 (home-page "https://github.com/trevorld/findpython")
4617 (synopsis "Functions to find an acceptable Python binary")
4619 "This package was designed to find an acceptable Python binary that
4620 matches version and feature constraints.")
4621 (license license:expat)))
4623 ;; This in not the same as "r-argparser"
4624 (define-public r-argparse
4631 (uri (cran-uri "argparse" version))
4634 "0fzrbj87b274vf96azdnsjxk2nf45d5wy58vzmlah4b4h7q4j524"))))
4635 (build-system r-build-system)
4636 (inputs `(("python" ,python)))
4638 `(("r-findpython" ,r-findpython)
4639 ("r-getopt" ,r-getopt)
4640 ("r-jsonlite" ,r-jsonlite)
4641 ("r-proto" ,r-proto)))
4642 (home-page "https://github.com/trevorld/argparse")
4643 (synopsis "Command line optional and positional argument parser")
4645 "This package provides a command line parser to be used with Rscript to
4646 write shebang scripts that gracefully accept positional and optional arguments
4647 and automatically generate usage notices.")
4648 (license license:gpl2+)))