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>
11 ;;; Copyright © 2018 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
13 ;;; This file is part of GNU Guix.
15 ;;; GNU Guix is free software; you can redistribute it and/or modify it
16 ;;; under the terms of the GNU General Public License as published by
17 ;;; the Free Software Foundation; either version 3 of the License, or (at
18 ;;; your option) any later version.
20 ;;; GNU Guix is distributed in the hope that it will be useful, but
21 ;;; WITHOUT ANY WARRANTY; without even the implied warranty of
22 ;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
23 ;;; GNU General Public License for more details.
25 ;;; You should have received a copy of the GNU General Public License
26 ;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
28 (define-module (gnu packages cran)
29 #:use-module ((guix licenses) #:prefix license:)
30 #:use-module (guix packages)
31 #:use-module (guix download)
32 #:use-module (guix utils)
33 #:use-module (guix build-system r)
34 #:use-module (gnu packages compression)
35 #:use-module (gnu packages gcc)
36 #:use-module (gnu packages machine-learning)
37 #:use-module (gnu packages maths)
38 #:use-module (gnu packages mpi)
39 #:use-module (gnu packages perl)
40 #:use-module (gnu packages pkg-config)
41 #:use-module (gnu packages python)
42 #:use-module (gnu packages statistics)
43 #:use-module (gnu packages tls)
44 #:use-module (gnu packages web))
46 (define-public r-tidyverse
53 (uri (cran-uri "tidyverse" version))
56 "0yy3fkjksgcn6wkbgsb0pbnmsyqs4m01mziqafhig578nixs4rxd"))))
57 (build-system r-build-system)
59 `(("r-broom" ,r-broom)
61 ("r-crayon" ,r-crayon)
62 ("r-dbplyr" ,r-dbplyr)
64 ("r-forcats" ,r-forcats)
65 ("r-ggplot2" ,r-ggplot2)
69 ("r-jsonlite" ,r-jsonlite)
70 ("r-lubridate" ,r-lubridate)
71 ("r-magrittr" ,r-magrittr)
72 ("r-modelr" ,r-modelr)
75 ("r-readxl" ,r-readxl)
76 ("r-reprex" ,r-reprex)
78 ("r-rstudioapi" ,r-rstudioapi)
80 ("r-stringr" ,r-stringr)
81 ("r-tibble" ,r-tibble)
84 (home-page "https://tidyverse.tidyverse.org")
85 (synopsis "Install and load packages from the \"Tidyverse\"")
87 "The @code{tidyverse} is a set of packages that work in harmony because
88 they share common data representations and API design. This package is
89 designed to make it easy to install and load multiple tidyverse packages in a
91 (license license:gpl3)))
93 (define-public r-rvest
100 (uri (cran-uri "rvest" version))
103 "04mv99z8dixywx96kfy4215g6ib23s7qvd77hcf9pxqxzcvqhvhd"))))
104 (build-system r-build-system)
107 ("r-magrittr" ,r-magrittr)
108 ("r-selectr" ,r-selectr)
110 (home-page "https://github.com/hadley/rvest")
111 (synopsis "Simple web scraping for R")
113 "@code{r-rvest} helps you scrape information from web pages. It is
114 designed to work with @code{magrittr} to make it easy to express common web
115 scraping tasks, inspired by libraries like @code{BeautifulSoup}.")
116 (license license:gpl3)))
118 (define-public r-selectr
125 (uri (cran-uri "selectr" version))
128 "1jp27rxks4w29l47k42869hp8hnkzq2rnvsqbr44wd19fqb2zm4b"))))
129 (build-system r-build-system)
131 `(("r-stringr" ,r-stringr)
133 (home-page "https://sjp.co.nz/projects/selectr/")
134 (synopsis "Translate CSS selectors to XPath expressions")
136 "@code{r-selectr} translates a CSS3 selector into an equivalent XPath
137 expression. This allows you to use CSS selectors when working with the XML
138 package as it can only evaluate XPath expressions. Also provided are
139 convenience functions useful for using CSS selectors on XML nodes. This
140 package is a port of the Python package @code{cssselect}.")
141 (license license:bsd-3)))
143 (define-public r-reprex
150 (uri (cran-uri "reprex" version))
153 "105d9vsmqfilgpw8psfb2wyiz1hvcycvh4cqhb3ab37lm3rcavvs"))))
154 (build-system r-build-system)
156 `(("r-callr" ,r-callr)
158 ("r-rmarkdown" ,r-rmarkdown)
159 ("r-whisker" ,r-whisker)))
160 (home-page "https://github.com/tidyverse/reprex")
161 (synopsis "Prepare reproducible R code examples for sharing")
163 "This package provides a convenience wrapper that uses the
164 @code{rmarkdown} package to render small snippets of code to target formats
165 that include both code and output. The goal is to encourage the sharing of
166 small, reproducible, and runnable examples on code-oriented websites or email.
167 @code{reprex} also extracts clean, runnable R code from various common formats,
168 such as copy/paste from an R session.")
169 (license license:expat)))
171 (define-public r-callr
178 (uri (cran-uri "callr" version))
181 "1053qqq632z94pqq2v5dynjpgyv1b1c8zvidmcllw7zn8zha8gqf"))))
182 (build-system r-build-system)
185 ("r-processx" ,r-processx)))
186 (home-page "https://github.com/r-lib/callr#readme")
187 (synopsis "Call R from R")
189 "It is sometimes useful to perform a computation in a separate R process,
190 without affecting the current R process at all. This packages does exactly
192 (license license:expat)))
194 (define-public r-readxl
201 (uri (cran-uri "readxl" version))
204 "05ii8knrg4jji6h7bv6bfpn279b6x52yrskdx5rv7b0hcpy22gdn"))))
205 (build-system r-build-system)
207 `(("r-cellranger" ,r-cellranger)
209 ("r-tibble" ,r-tibble)))
210 (home-page "https://readxl.tidyverse.org")
211 (synopsis "Read Excel files")
213 "This package lets you import Excel files into R. It supports
214 @file{.xls} via the embedded @code{libxls} C library and @file{.xlsx} via
215 the embedded @code{RapidXML} C++ library.")
216 ;; XXX: This package bundles a copy of 'libxsl' which is BSD-2 and
217 ;; 'rapidxml' which is Boost.
218 (license (list license:gpl3 license:bsd-2 license:boost1.0))))
220 (define-public r-modelr
227 (uri (cran-uri "modelr" version))
230 "09whg3q5xq6csbqwgwfwav09vda8vgady5j70sk52xcn232k363a"))))
231 (build-system r-build-system)
233 `(("r-broom" ,r-broom)
235 ("r-lazyeval" ,r-lazyeval)
236 ("r-magrittr" ,r-magrittr)
238 ("r-tibble" ,r-tibble)
239 ("r-tidyr" ,r-tidyr)))
240 (home-page "https://github.com/tidyverse/modelr")
241 (synopsis "Helper functions for modelling in pipelines")
243 "Functions for modelling that help you seamlessly integrate modelling
244 into a pipeline of data manipulation and visualisation.")
245 (license license:gpl3)))
247 (define-public r-haven
254 (uri (cran-uri "haven" version))
257 "0pp8xjf5lzqg1wr8cwxj4njx99vxwlflwjrd7jvyzwlfpwh7n1qa"))))
258 (build-system r-build-system)
262 `(("r-forcats" ,r-forcats)
266 ("r-tibble" ,r-tibble)))
267 (home-page "https://haven.tidyverse.org")
268 (synopsis "Import and Export 'SPSS', 'Stata' and 'SAS' Files")
270 "This package lets you mport foreign statistical formats into R via the
271 embedded @url{https://github.com/WizardMac/ReadStat,ReadStat} C library.")
272 (license license:expat)))
274 (define-public r-amap
280 (uri (cran-uri "amap" version))
283 "1qnl2x98x64iaipkx5126rsddq2sx5ml43h75xyiyn30yvbmlxyk"))))
284 (build-system r-build-system)
286 `(("gfortran" ,gfortran)))
287 (home-page "http://mulcyber.toulouse.inra.fr/projects/amap/")
288 (synopsis "Another multidimensional analysis package")
289 (description "This package provides tools for clustering and principal
290 component analysis (with robust methods, and parallelized functions).")
291 (license license:gpl2+)))
300 (uri (cran-uri "ape" version))
303 "0vm2065993wf4hdqarxqykhfz9aaj0rrb98alhkq4qw1d2kdrmdp"))))
304 (build-system r-build-system)
306 `(("r-lattice" ,r-lattice)
309 (home-page "http://ape-package.ird.fr/")
310 (synopsis "Analyses of phylogenetics and evolution")
312 "This package provides functions for reading, writing, plotting, and
313 manipulating phylogenetic trees, analyses of comparative data in a
314 phylogenetic framework, ancestral character analyses, analyses of
315 diversification and macroevolution, computing distances from DNA sequences,
316 and several other tools.")
317 (license license:gpl2+)))
319 (define-public r-abbyyr
326 (uri (cran-uri "abbyyR" version))
329 "1jh1c1ad6mgw7brdh2isnza1qpjlfxnqr7jl76yd93axyfl76xjx"))))
330 (properties `((upstream-name . "abbyyR")))
331 (build-system r-build-system)
336 ("r-progress" ,r-progress)
339 (home-page "https://github.com/soodoku/abbyyR")
340 (synopsis "Access to Abbyy Optical Character Recognition (OCR) API")
342 "This package provides tools to get text from images of text using Abbyy
343 Cloud Optical Character Recognition (OCR) API. With abbyyyR, one can easily
344 OCR images, barcodes, forms, documents with machine readable zones, e.g.
345 passports and get the results in a variety of formats including plain text and
346 XML. To learn more about the Abbyy OCR API, see @url{http://ocrsdk.com/}.")
347 (license license:expat)))
349 (define-public r-colorspace
351 (name "r-colorspace")
356 (uri (cran-uri "colorspace" version))
358 (base32 "0d1ya7hx4y58n5ivwmdmq2zgh0g2sbv7ykh13n85c1355csd57yx"))))
359 (build-system r-build-system)
360 (home-page "https://cran.r-project.org/web/packages/colorspace")
361 (synopsis "Color space manipulation")
363 "This package carries out a mapping between assorted color spaces
364 including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB and polar
365 CIELAB. Qualitative, sequential, and diverging color palettes based on HCL
366 colors are provided.")
367 (license license:bsd-3)))
369 (define-public r-glue
376 (uri (cran-uri "glue" version))
379 "0vi9y8ix95g6hjqdz9c9y4119apbdjcypdv0ag8cl6vaxqs5n9qr"))))
380 (build-system r-build-system)
381 (home-page "https://github.com/tidyverse/glue")
382 (synopsis "Interpreted string literals")
384 "This package provides an implementation of interpreted string literals,
385 inspired by Python's Literal String Interpolation (PEP-0498) and
386 Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.")
387 (license license:expat)))
389 (define-public r-pastecs
395 (uri (cran-uri "pastecs" version))
398 "0z4dic94ar646w7zc2ggi5hgvf2qnznsani94c5pyql8zspz47lc"))))
399 (build-system r-build-system)
401 `(("r-boot" ,r-boot)))
402 (home-page "http://www.sciviews.org/pastecs")
403 (synopsis "Analysis of space-time ecological series")
405 "This package provides functions for regulation, decomposition and analysis
406 of space-time series. The @code{pastecs} library is a PNEC-Art4 and IFREMER
407 initiative to bring PASSTEC 2000 functionalities to R.")
408 (license license:gpl2+)))
410 (define-public r-plogr
417 (uri (cran-uri "plogr" version))
420 "0a8dhzlna79ggyhfr0nncgh15a9n6r0dsz664pz0ah323wpblqqf"))))
421 (build-system r-build-system)
422 (home-page "https://github.com/krlmlr/plogr")
423 (synopsis "R bindings for the plog C++ logging library")
425 "This package provides the header files for a stripped-down version of
426 the plog header-only C++ logging library, and a method to log to R's standard
428 (license license:expat)))
437 (uri (cran-uri "pls" version))
440 "15j59p5x0rkdrk7iqzkipsy50rsyjl31w8zxc4w3v1j5gzxhi1rx"))))
441 (build-system r-build-system)
442 (home-page "http://mevik.net/work/software/pls.html")
443 (synopsis "Partial Least Squares and Principal Component Regression")
445 "The pls package implements multivariate regression methods: Partial Least
446 Squares Regression (@dfn{PLSR}), Principal Component Regression (@dfn{PCR}), and
447 Canonical Powered Partial Least Squares (@dfn{CPPLS}). It supports:
450 @item several algorithms: the traditional orthogonal scores (@dfn{NIPALS}) PLS
451 algorithm, kernel PLS, wide kernel PLS, Simpls, and PCR through @code{svd}
452 @item multi-response models (or @dfn{PLS2})
453 @item flexible cross-validation
454 @item Jackknife variance estimates of regression coefficients
455 @item extensive and flexible plots: scores, loadings, predictions, coefficients,
456 (R)MSEP, R², and correlation loadings
457 @item formula interface, modelled after @code{lm()}, with methods for predict,
458 print, summary, plot, update, etc.
459 @item extraction functions for coefficients, scores, and loadings
460 @item MSEP, RMSEP, and R² estimates
461 @item multiplicative scatter correction (@dfn{MSC})
463 (license license:gpl2)))
472 (uri (cran-uri "ps" version))
474 (base32 "1zm9qkyvy1fvcjvmgw51iqw8x1xzkpy7rx7xnchwfj0xpzal0ljx"))))
475 (build-system r-build-system)
476 (home-page "http://ps.r-lib.org")
477 (synopsis "List, query, and manipulate system processes")
479 "The ps package implements an API to list, query, and manipulate system
480 processes. Most of its code is based on the @code{psutil} Python package.")
481 (license license:bsd-3)))
483 (define-public r-rcpp
490 (uri (cran-uri "Rcpp" version))
492 (base32 "006kpg2ph109rh1l13lqk26pp4as4fvl5661vrcczjygacgd1v7w"))))
493 (build-system r-build-system)
494 (home-page "http://www.rcpp.org")
495 (synopsis "Seamless R and C++ integration")
497 "The Rcpp package provides R functions as well as C++ classes which offer
498 a seamless integration of R and C++. Many R data types and objects can be
499 mapped back and forth to C++ equivalents which facilitates both writing of new
500 code as well as easier integration of third-party libraries. Documentation
501 about Rcpp is provided by several vignettes included in this package, via the
502 'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel
503 and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
504 'citation(\"Rcpp\")' for details on these last two.")
505 (license license:gpl2+)))
507 (define-public r-bindr
514 (uri (cran-uri "bindr" version))
517 "1l05fpk2yql3jka321c0bdgx6mqq9pvfrg2844lbjfpbgjkmqy3w"))))
518 (build-system r-build-system)
519 (home-page "https://github.com/krlmlr/bindr")
520 (synopsis "Parametrized active bindings")
522 "This package provides a simple interface for creating active bindings
523 where the bound function accepts additional arguments.")
524 (license license:expat)))
526 (define-public r-bindrcpp
533 (uri (cran-uri "bindrcpp" version))
536 "0rz4ibjdjsxl99ff3ha79z7cnjmilx4rx58fk9kk7ld9xc4hf4s8"))))
537 (build-system r-build-system)
539 `(("r-bindr" ,r-bindr)
542 (home-page "https://github.com/krlmlr/bindrcpp")
543 (synopsis "Rcpp interface to active bindings")
545 "This package provides an easy way to fill an environment with active
546 bindings that call a C++ function.")
547 (license license:expat)))
556 (uri (cran-uri "AUC" version))
559 "0ripcib2qz0m7rgr1kiz68nx8f6p408l1ww7j78ljqik7p3g41g7"))))
560 (properties `((upstream-name . "AUC")))
561 (build-system r-build-system)
562 (home-page "https://cran.r-project.org/web/packages/AUC")
563 (synopsis "Compute the area under the curve of selected measures")
565 "This package includes functions to compute the area under the curve of
566 selected measures: the area under the sensitivity curve (AUSEC), the area
567 under the specificity curve (AUSPC), the area under the accuracy
568 curve (AUACC), and the area under the receiver operating characteristic
569 curve (AUROC). The curves can also be visualized. Support for partial areas
571 (license license:gpl2+)))
573 (define-public r-calibrate
580 (uri (cran-uri "calibrate" version))
583 "010nb1nb9y7zhw2k6d2i2drwy5brp7b83mjj2w7i3wjp9xb6l1kq"))))
584 (build-system r-build-system)
586 `(("r-mass" ,r-mass)))
587 (home-page "https://cran.r-project.org/web/packages/calibrate")
588 (synopsis "Calibration of scatterplot and biplot axes")
590 "This is a package for drawing calibrated scales with tick marks
591 on (non-orthogonal) variable vectors in scatterplots and biplots.")
592 (license license:gpl2)))
594 (define-public r-shape
601 (uri (cran-uri "shape" version))
604 "0hadk3mapkhbh8xjkiz52vxdagmmgvm15xwpzb90ikw4giyipjzl"))))
605 (build-system r-build-system)
606 (home-page "https://cran.r-project.org/web/packages/shape")
607 (synopsis "Functions for plotting graphical shapes")
609 "This package provides functions for plotting graphical shapes such as
610 ellipses, circles, cylinders, arrows, ...")
611 (license license:gpl3+)))
613 (define-public r-globaloptions
615 (name "r-globaloptions")
620 (uri (cran-uri "GlobalOptions" version))
623 "1wlyqz1yhmhjwslrd7q69jbd9vsbjkjfc01g60kl3cdpyr8hlyjn"))))
624 (properties `((upstream-name . "GlobalOptions")))
625 (build-system r-build-system)
626 (home-page "https://github.com/jokergoo/GlobalOptions")
627 (synopsis "Generate functions to get or set global options")
629 "This package provides more controls on the option values such as
630 validation and filtering on the values, making options invisible or private.")
631 (license license:gpl2+)))
633 (define-public r-circlize
640 (uri (cran-uri "circlize" version))
643 "1l28maiqi549z191srncxgabx5fnvf0lld7smzwfd3vr5cx8nqww"))))
644 (build-system r-build-system)
646 `(("r-colorspace" ,r-colorspace)
647 ("r-globaloptions" ,r-globaloptions)
648 ("r-shape" ,r-shape)))
649 (home-page "https://github.com/jokergoo/circlize")
650 (synopsis "Circular visualization")
652 "Circular layout is an efficient way to visualise huge amounts of
653 information. This package provides an implementation of circular layout
654 generation in R as well as an enhancement of available software. Its
655 flexibility is based on the usage of low-level graphics functions such that
656 self-defined high-level graphics can be easily implemented by users for
657 specific purposes. Together with the seamless connection between the powerful
658 computational and visual environment in R, it gives users more convenience and
659 freedom to design figures for better understanding complex patterns behind
660 multi-dimensional data.")
661 (license license:gpl2+)))
663 (define-public r-powerlaw
670 (uri (cran-uri "poweRlaw" version))
673 "04sr0nhdd1v915m0zf5gasznzgi08ykcy20kkwdw0l5mvvdbic8m"))))
674 (properties `((upstream-name . "poweRlaw")))
675 (build-system r-build-system)
677 `(("r-vgam" ,r-vgam)))
678 (home-page "https://github.com/csgillespie/poweRlaw")
679 (synopsis "Tools for the analysis of heavy tailed distributions")
681 "This package provides an implementation of maximum likelihood estimators
682 for a variety of heavy tailed distributions, including both the discrete and
683 continuous power law distributions. Additionally, a goodness-of-fit based
684 approach is used to estimate the lower cut-off for the scaling region.")
685 ;; Any of these GPL versions.
686 (license (list license:gpl2 license:gpl3))))
688 (define-public r-compare
695 (uri (cran-uri "compare" version))
698 "0k9zms930b5dz9gy8414li21wy0zg9x9vp7301v5cvyfi0g7xzgw"))))
699 (build-system r-build-system)
700 (home-page "https://cran.r-project.org/web/packages/compare")
701 (synopsis "Comparing objects for differences")
703 "This package provides functions to compare a model object to a
704 comparison object. If the objects are not identical, the functions can be
705 instructed to explore various modifications of the objects (e.g., sorting
706 rows, dropping names) to see if the modified versions are identical.")
707 (license license:gpl2+)))
709 (define-public r-dendextend
711 (name "r-dendextend")
716 (uri (cran-uri "dendextend" version))
719 "1virn3c232xwcq3d0hhkgjh5gpzl01s39iwii5gxcm9mnsxjzdrh"))))
720 (build-system r-build-system)
723 ("r-ggplot2" ,r-ggplot2)
724 ("r-magrittr" ,r-magrittr)
725 ("r-viridis" ,r-viridis)
726 ("r-whisker" ,r-whisker)))
727 (home-page "https://cran.r-project.org/web/packages/dendextend")
728 (synopsis "Extending 'dendrogram' functionality in R")
730 "This package offers a set of functions for extending @code{dendrogram}
731 objects in R, letting you visualize and compare trees of hierarchical
732 clusterings. You can adjust a tree's graphical parameters (the color, size,
733 type, etc of its branches, nodes and labels) and visually and statistically
734 compare different dendrograms to one another.")
735 ;; Any of these versions
736 (license (list license:gpl2 license:gpl3))))
738 (define-public r-getoptlong
740 (name "r-getoptlong")
745 (uri (cran-uri "GetoptLong" version))
748 "1fl3w2n602ldybc5qj7qw4xmzzb804bsjkqwf6dswzj0vf0qiadr"))))
749 (properties `((upstream-name . "GetoptLong")))
750 (build-system r-build-system)
754 `(("r-globaloptions" ,r-globaloptions)
755 ("r-rjson" ,r-rjson)))
756 (home-page "https://github.com/jokergoo/GetoptLong")
757 (synopsis "Parsing command-line arguments and variable interpolation")
759 "This is yet another command-line argument parser which wraps the
760 powerful Perl module @code{Getopt::Long} and with some adaptation for easier
761 use in R. It also provides a simple way for variable interpolation in R.")
762 (license license:gpl2+)))
764 (define-public r-fastmatch
771 (uri (cran-uri "fastmatch" version))
774 "0z80jxkygmzn11sq0c2iz357s9bpki548lg926g85gldhfj1md90"))))
775 (build-system r-build-system)
776 (home-page "http://www.rforge.net/fastmatch")
777 (synopsis "Fast match function")
779 "This package provides a fast @code{match} replacement for cases that
780 require repeated look-ups. It is slightly faster that R's built-in
781 @code{match} function on first match against a table, but extremely fast on
782 any subsequent lookup as it keeps the hash table in memory.")
783 (license license:gpl2)))
792 (uri (cran-uri "ff" version))
795 "1w724q4jpzbvzpilb2ifviaxkjgk9lzwxz9gksnvicbmfa20fqqw"))))
796 (build-system r-build-system)
797 (propagated-inputs `(("r-bit" ,r-bit)))
798 (home-page "http://ff.r-forge.r-project.org/")
799 (synopsis "Memory-efficient storage of large data on disk and access functions")
801 "This package provides data structures that are stored on disk but
802 behave (almost) as if they were in RAM by transparently mapping only a section
804 ;; error Architecture not supported.
805 (supported-systems (delete "aarch64-linux" %supported-systems))
806 (license license:gpl2)))
808 (define-public r-ffbase
815 (uri (cran-uri "ffbase" version))
818 "1nz97bndxxkzp8rq6va8ff5ky9vkaib1jybm6j852awwb3n9had5"))))
819 (build-system r-build-system)
822 ("r-fastmatch" ,r-fastmatch)
824 (home-page "http://github.com/edwindj/ffbase")
825 (synopsis "Basic statistical functions for package 'ff'")
827 "This package extends the out of memory vectors of @code{ff} with
828 statistical functions and other utilities to ease their usage.")
829 (license license:gpl3)))
831 (define-public r-prettyunits
833 (name "r-prettyunits")
838 (uri (cran-uri "prettyunits" version))
841 "0p3z42hnk53x7ky4d1dr2brf7p8gv3agxr71i99m01n2hq2ri91m"))))
842 (build-system r-build-system)
844 `(("r-assertthat" ,r-assertthat)
845 ("r-magrittr" ,r-magrittr)))
846 (home-page "https://github.com/gaborcsardi/prettyunits")
847 (synopsis "Pretty, human readable formatting of quantities")
849 "This package provides tools for pretty, human readable formatting of
851 (license license:expat)))
853 (define-public r-reshape
860 (uri (cran-uri "reshape" version))
863 "14ir3w4bb3bsz8jsak27nj7kpn227pdgr9653gjq5wc93rywi9ig"))))
864 (build-system r-build-system)
868 (home-page "http://had.co.nz/reshape")
869 (synopsis "Flexibly reshape data")
871 "Flexibly restructure and aggregate data using just two functions:
872 @code{melt} and @code{cast}. This package provides them.")
873 (license license:expat)))
875 (define-public r-progress
882 (uri (cran-uri "progress" version))
885 "1rhwm0bdw30z3rvl0bn56xprjl3zrdy7150w4gl4bkvn2d6h9fav"))))
886 (build-system r-build-system)
888 `(("r-crayon" ,r-crayon)
890 ("r-prettyunits" ,r-prettyunits)
892 (home-page "https://github.com/gaborcsardi/progress")
893 (synopsis "Terminal progress bars")
895 "This package provides configurable progress bars. They may include
896 percentage, elapsed time, and/or the estimated completion time. They work in
897 terminals, in Emacs ESS, RStudio, Windows Rgui, and the macOS R.app. The
898 package also provides a C++ API, that works with or without Rcpp.")
899 (license license:expat)))
901 (define-public r-ggally
908 (uri (cran-uri "GGally" version))
911 "1zjmcc5bzagvy7c5cmdcl39xmx07fwi98yrj4i05w7y40kqcsiws"))))
912 (properties `((upstream-name . "GGally")))
913 (build-system r-build-system)
915 `(("libressl" ,libressl)))
917 `(("r-ggplot2" ,r-ggplot2)
918 ("r-gtable" ,r-gtable)
920 ("r-progress" ,r-progress)
921 ("r-rcolorbrewer" ,r-rcolorbrewer)
922 ("r-reshape" ,r-reshape)
923 ("r-rlang" ,r-rlang)))
924 (home-page "https://ggobi.github.io/ggally")
925 (synopsis "Extension to ggplot2")
927 "The R package ggplot2 is a plotting system based on the grammar of
928 graphics. GGally extends ggplot2 by adding several functions to reduce the
929 complexity of combining geometric objects with transformed data. Some of
930 these functions include a pairwise plot matrix, a two group pairwise plot
931 matrix, a parallel coordinates plot, a survival plot, and several functions to
933 (license license:gpl2+)))
935 (define-public r-proxy
942 (uri (cran-uri "proxy" version))
945 "0l0ff8irmmvic941is290hd5vszyhaj5nfwna4v3w9c1zk5nr1ma"))))
946 (build-system r-build-system)
947 (home-page "https://cran.r-project.org/web/packages/proxy")
948 (synopsis "Distance and similarity measures")
950 "This package provides an extensible framework for the efficient
951 calculation of auto- and cross-proximities, along with implementations of the
953 (license license:gpl2)))
962 (uri (cran-uri "sp" version))
965 "17xm1ig80p9wc860hm3bgishz6lj9fxgwqidj7rkbk4ap99qp62p"))))
966 (build-system r-build-system)
968 `(("r-lattice" ,r-lattice)))
969 (home-page "https://cran.r-project.org/web/packages/sp")
970 (synopsis "Classes and methods for spatial data")
972 "This package provides classes and methods for spatial data; the classes
973 document where the spatial location information resides, for 2D or 3D data.
974 Utility functions are provided, e.g. for plotting data as maps, spatial
975 selection, as well as methods for retrieving coordinates, for subsetting,
976 print, summary, etc.")
977 (license license:gpl2+)))
979 (define-public r-rmtstat
986 (uri (cran-uri "RMTstat" version))
989 "1nn25q4kmh9kj975sxkrpa97vh5irqrlqhwsfinbck6h6ia4rsw1"))))
990 (properties `((upstream-name . "RMTstat")))
991 (build-system r-build-system)
992 (home-page "https://cran.r-project.org/web/packages/RMTstat")
993 (synopsis "Distributions, statistics and tests derived from random matrix theory")
995 "This package provides functions for working with the Tracy-Widom laws
996 and other distributions related to the eigenvalues of large Wishart
998 (license license:bsd-3)))
1000 (define-public r-rmpi
1006 (uri (cran-uri "Rmpi" version))
1009 "1b62gs7w1xqadqd7ir41jnxlcf14gcqfxd0915kn9ckdlsdrh0sw"))))
1010 (properties `((upstream-name . "Rmpi")))
1011 (build-system r-build-system)
1013 `(#:configure-flags '("--configure-args=\"--with-Rmpi-type=OPENMPI\"")))
1015 `(("openmpi" ,openmpi)))
1017 `(("pkg-config" ,pkg-config)))
1018 (home-page "http://www.stats.uwo.ca/faculty/yu/Rmpi")
1019 (synopsis "R interface to message-passing interface (MPI)")
1021 "This package provides an interface (wrapper) to MPI APIs. It also
1022 provides an interactive R manager and worker environment.")
1023 (license license:gpl2+)))
1025 (define-public r-lmoments
1032 (uri (cran-uri "Lmoments" version))
1035 "13p0r4w16jvjnyjmkhkp3dwdfr1gap2l0k4k5jy41m8nc5fvcx79"))))
1036 (properties `((upstream-name . "Lmoments")))
1037 (build-system r-build-system)
1038 (home-page "http://www.tilastotiede.fi/juha_karvanen.html")
1039 (synopsis "L-moments and quantile mixtures")
1041 "This package contains functions to estimate L-moments and trimmed
1042 L-moments from the data. It also contains functions to estimate the
1043 parameters of the normal polynomial quantile mixture and the Cauchy polynomial
1044 quantile mixture from L-moments and trimmed L-moments.")
1045 (license license:gpl2)))
1047 (define-public r-distillery
1049 (name "r-distillery")
1054 (uri (cran-uri "distillery" version))
1057 "1m0pgmlvk7bsb6q3kxagnq422babk61sf73naavac68v8x2q8fix"))))
1058 (build-system r-build-system)
1059 (home-page "http://www.ral.ucar.edu/staff/ericg")
1060 (synopsis "Functions for confidence intervals and object information")
1062 "This package provides some very simple method functions for confidence
1063 interval calculation and to distill pertinent information from a potentially
1064 complex object; primarily used in common with the packages extRemes and
1066 (license license:gpl2+)))
1068 (define-public r-extremes
1075 (uri (cran-uri "extRemes" version))
1078 "0cpvcajk9xyy7662nqkyx333vrxpwsc5nmv0bfnhsbgijz5y0hvm"))))
1079 (properties `((upstream-name . "extRemes")))
1080 (build-system r-build-system)
1083 ("r-distillery" ,r-distillery)
1084 ("r-lmoments" ,r-lmoments)))
1085 (home-page "http://www.assessment.ucar.edu/toolkit/")
1086 (synopsis "Extreme value analysis")
1088 "ExtRemes is a suite of functions for carrying out analyses on the
1089 extreme values of a process of interest; be they block maxima over long blocks
1090 or excesses over a high threshold.")
1091 (license license:gpl2+)))
1093 (define-public r-lmtest
1100 (uri (cran-uri "lmtest" version))
1103 "0sym9sm1vl6bbgq01jhz1plxqmgh8hrgrn7rw0mwvsalcn6id7xy"))))
1104 (build-system r-build-system)
1106 `(("r-zoo" ,r-zoo)))
1108 `(("gfortran" ,gfortran)))
1109 (home-page "https://cran.r-project.org/web/packages/lmtest")
1110 (synopsis "Testing linear regression models")
1112 "This package provides a collection of tests, data sets, and examples for
1113 diagnostic checking in linear regression models. Furthermore, some generic
1114 tools for inference in parametric models are provided.")
1115 ;; Either version is okay
1116 (license (list license:gpl2 license:gpl3))))
1118 (define-public r-idr
1124 (uri (cran-uri "idr" version))
1127 "05nvgw1xdg670bsjjrxkgd1mrdkciccpw4krn0zcgdf2r21dzgwb"))))
1128 (build-system r-build-system)
1129 (home-page "https://cran.r-project.org/web/packages/idr/")
1130 (synopsis "Irreproducible discovery rate")
1132 "This is a package for estimating the copula mixture model and plotting
1133 correspondence curves in \"Measuring reproducibility of high-throughput
1134 experiments\" (2011), Annals of Applied Statistics, Vol. 5, No. 3, 1752-1779,
1135 by Li, Brown, Huang, and Bickel")
1136 (license license:gpl2+)))
1138 (define-public r-inline
1144 (uri (cran-uri "inline" version))
1147 "0s4wssvpan189fijahknxq5s22ww9bzmdlmyhnra748r7khky17z"))))
1148 (build-system r-build-system)
1149 (home-page "https://cran.r-project.org/web/packages/inline")
1150 (synopsis "Functions to inline C, C++, Fortran function calls from R")
1152 "This package provides functionality to dynamically define R functions
1153 and S4 methods with inlined C, C++ or Fortran code supporting @code{.C} and
1154 @code{.Call} calling conventions.")
1155 ;; Any version of the LGPL.
1156 (license license:lgpl3+)))
1158 (define-public r-bbmle
1165 (uri (cran-uri "bbmle" version))
1168 "1xzij7swrrzl5ly8l3lw6awh486zcm00251dwqws1y23fbgyh3vc"))))
1169 (build-system r-build-system)
1171 `(("r-lattice" ,r-lattice)
1173 ("r-numderiv" ,r-numderiv)))
1174 (home-page "https://cran.r-project.org/web/packages/bbmle")
1175 (synopsis "Tools for General Maximum Likelihood Estimation")
1177 "This package provides methods and functions for fitting maximum
1178 likelihood models in R. This package modifies and extends the @code{mle}
1179 classes in the @code{stats4} package.")
1180 ;; Any version of the GPL
1181 (license license:gpl2+)))
1183 (define-public r-emdbook
1190 (uri (cran-uri "emdbook" version))
1193 "0880cx6rqm9vgd2zxnd2k0igfl80gy7ak15w36clwlzavab59hmv"))))
1194 (build-system r-build-system)
1196 `(("r-bbmle" ,r-bbmle)
1198 ("r-lattice" ,r-lattice)
1201 ("r-rcpp" ,r-rcpp)))
1202 (home-page "http://www.math.mcmaster.ca/bolker/emdbook")
1203 (synopsis "Support functions and data for \"Ecological Models and Data\"")
1205 "This package provides auxiliary functions and data sets for \"Ecological
1206 Models and Data\", a book presenting maximum likelihood estimation and related
1207 topics for ecologists (ISBN 978-0-691-12522-0).")
1209 (license (list license:gpl2 license:gpl3))))
1211 (define-public r-lpsolve
1218 (uri (cran-uri "lpSolve" version))
1221 "13a9ry8xf5j1f2j6imqrxdgxqz3nqp9sj9b4ivyx9sid459irm6m"))))
1222 (properties `((upstream-name . "lpSolve")))
1223 (build-system r-build-system)
1224 (home-page "https://cran.r-project.org/web/packages/lpSolve")
1225 (synopsis "R interface to Lp_solve to solve linear/integer programs")
1227 "Lp_solve is software for solving linear, integer and mixed integer
1228 programs. This implementation supplies a \"wrapper\" function in C and some R
1229 functions that solve general linear/integer problems, assignment problems, and
1230 transportation problems.")
1231 (license license:lgpl2.0)))
1233 (define-public r-limsolve
1240 (uri (cran-uri "limSolve" version))
1243 "1ll6ir42h3g2fzf0wqai213bm82gpwjj2hfma2np3mz024sc09rg"))))
1244 (properties `((upstream-name . "limSolve")))
1245 (build-system r-build-system)
1247 `(("r-lpsolve" ,r-lpsolve)
1249 ("r-quadprog" ,r-quadprog)))
1250 (native-inputs `(("gfortran" ,gfortran)))
1251 (home-page "https://cran.r-project.org/web/packages/limSolve")
1252 (synopsis "Solving linear inverse models")
1254 "This package provides functions that:
1257 @item find the minimum/maximum of a linear or quadratic function,
1258 @item sample an underdetermined or overdetermined system,
1259 @item solve a linear system Ax=B for the unknown x.
1262 It includes banded and tridiagonal linear systems. The package calls Fortran
1263 functions from LINPACK.")
1265 (license (list license:gpl2+ license:gpl3+))))
1267 (define-public r-fitdistrplus
1269 (name "r-fitdistrplus")
1274 (uri (cran-uri "fitdistrplus" version))
1277 "18x9454g598d54763k3hvi33iszifk7sxvhd1zg5r8z1vpixx3z6"))))
1278 (build-system r-build-system)
1280 `(("r-mass" ,r-mass)
1281 ("r-survival" ,r-survival)))
1282 (home-page "http://riskassessment.r-forge.r-project.org")
1283 (synopsis "Fitting a parametric distribution from data")
1285 "This package extends the @code{fitdistr} function of the MASS package
1286 with several functions to help the fit of a parametric distribution to
1287 non-censored or censored data. Censored data may contain left-censored,
1288 right-censored and interval-censored values, with several lower and upper
1289 bounds. In addition to @dfn{maximum likelihood estimation} (MLE), the package
1290 provides moment matching (MME), quantile matching (QME) and maximum
1291 goodness-of-fit estimation (MGE) methods (available only for non-censored
1292 data). Weighted versions of MLE, MME and QME are available.")
1293 (license license:gpl2+)))
1295 (define-public r-energy
1302 (uri (cran-uri "energy" version))
1305 "15k9dg0a82cs9ypm0wpcsff3il1hzhnnv86dv5ngby1r144czhi4"))))
1306 (build-system r-build-system)
1308 `(("r-boot" ,r-boot)
1309 ("r-rcpp" ,r-rcpp)))
1310 (home-page "https://cran.r-project.org/web/packages/energy")
1311 (synopsis "Multivariate inference via the energy of data")
1313 "This package provides e-statistics (energy) tests and statistics for
1314 multivariate and univariate inference, including distance correlation,
1315 one-sample, two-sample, and multi-sample tests for comparing multivariate
1316 distributions, are implemented. Measuring and testing multivariate
1317 independence based on distance correlation, partial distance correlation,
1318 multivariate goodness-of-fit tests, clustering based on energy distance,
1319 testing for multivariate normality, distance components (disco) for
1320 non-parametric analysis of structured data, and other energy
1321 statistics/methods are implemented.")
1322 (license license:gpl2+)))
1324 (define-public r-suppdists
1326 (name "r-suppdists")
1331 (uri (cran-uri "SuppDists" version))
1334 "1ffx8wigqqvz2pnh06jjc0fnf4vq9z2rhwk2y3f9aszn18ap3dgw"))))
1335 (properties `((upstream-name . "SuppDists")))
1336 (build-system r-build-system)
1337 (home-page "https://cran.r-project.org/web/packages/SuppDists")
1338 (synopsis "Supplementary distributions")
1340 "This package provides ten distributions supplementing those built into
1341 R. Inverse Gauss, Kruskal-Wallis, Kendall's Tau, Friedman's chi squared,
1342 Spearman's rho, maximum F ratio, the Pearson product moment correlation
1343 coefficient, Johnson distributions, normal scores and generalized
1344 hypergeometric distributions. In addition two random number generators of
1345 George Marsaglia are included.")
1346 (license license:gpl2+)))
1348 (define-public r-ksamples
1355 (uri (cran-uri "kSamples" version))
1358 "15d5q5vpp4wx5rk5kjxjdxpwc8mkq5sbdz8gi07iscrvhzb5rzfr"))))
1359 (properties `((upstream-name . "kSamples")))
1360 (build-system r-build-system)
1362 `(("r-suppdists" ,r-suppdists)))
1363 (home-page "https://cran.r-project.org/web/packages/kSamples")
1364 (synopsis "K-Sample rank tests and their combinations")
1366 "This package provides tools to compares k samples using the
1367 Anderson-Darling test, Kruskal-Wallis type tests with different rank score
1368 criteria, Steel's multiple comparison test, and the Jonckheere-Terpstra (JT)
1369 test. It computes asymptotic, simulated or (limited) exact P-values, all
1370 valid under randomization, with or without ties, or conditionally under random
1371 sampling from populations, given the observed tie pattern. Except for Steel's
1372 test and the JT test it also combines these tests across several blocks of
1374 (license license:gpl2+)))
1376 (define-public r-cvst
1383 (uri (cran-uri "CVST" version))
1386 "05l3yzkfrbds09ah9cdwn2sn4ryhq78lz33ryzrgkv176jc8qjw5"))))
1387 (properties `((upstream-name . "CVST")))
1388 (build-system r-build-system)
1390 `(("r-kernlab" ,r-kernlab)
1391 ("r-matrix" ,r-matrix)))
1392 (home-page "https://cran.r-project.org/web/packages/CVST")
1393 (synopsis "Fast cross-validation via sequential testing")
1395 "This package implements the fast cross-validation via sequential
1396 testing (CVST) procedure. CVST is an improved cross-validation procedure
1397 which uses non-parametric testing coupled with sequential analysis to
1398 determine the best parameter set on linearly increasing subsets of the data.
1399 Additionally to the CVST the package contains an implementation of the
1400 ordinary k-fold cross-validation with a flexible and powerful set of helper
1401 objects and methods to handle the overall model selection process. The
1402 implementations of the Cochran's Q test with permutations and the sequential
1403 testing framework of Wald are generic and can therefore also be used in other
1405 (license license:gpl2+)))
1407 (define-public r-squarem
1410 (version "2017.10-1")
1414 (uri (cran-uri "SQUAREM" version))
1417 "10xj26x7qjyvzndnbjl5krr9wabnb9cbrnp3m7xg673g8ddr12cv"))))
1418 (properties `((upstream-name . "SQUAREM")))
1419 (build-system r-build-system)
1420 (home-page "http://www.jhsph.edu/agingandhealth/People/Faculty_personal_pages/Varadhan.html")
1421 (synopsis "Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms")
1423 "This package provides algorithms for accelerating the convergence of
1424 slow, monotone sequences from smooth, contraction mapping such as the EM
1425 algorithm. It can be used to accelerate any smooth, linearly convergent
1426 acceleration scheme. A tutorial style introduction to this package is
1427 available in a vignette.")
1428 (license license:gpl2+)))
1430 (define-public r-lava
1437 (uri (cran-uri "lava" version))
1440 "0cayjspry3r2lcbvl77v5v52b2zarri3b8xsf87pw5a3jn9anxcf"))))
1441 (build-system r-build-system)
1443 `(("r-numderiv" ,r-numderiv)
1444 ("r-squarem" ,r-squarem)
1445 ("r-survival" ,r-survival)))
1446 (home-page "https://github.com/kkholst/lava")
1447 (synopsis "Latent variable models")
1449 "This package provides tools for the estimation and simulation of latent
1451 (license license:gpl3)))
1453 (define-public r-drr
1460 (uri (cran-uri "DRR" version))
1463 "1yd1fvllfkcrwg9v322n4wkk4q4q84nvy58y4vac9pdr3yf3i4vl"))))
1464 (properties `((upstream-name . "DRR")))
1465 (build-system r-build-system)
1467 `(("r-cvst" ,r-cvst)
1468 ("r-kernlab" ,r-kernlab)
1469 ("r-matrix" ,r-matrix)))
1470 (home-page "https://cran.r-project.org/web/packages/DRR")
1471 (synopsis "Dimensionality reduction via regression")
1473 "This package provides an implementation of dimensionality reduction via
1474 regression using Kernel Ridge Regression.")
1475 (license license:gpl3)))
1477 (define-public r-prodlim
1480 (version "2018.04.18")
1484 (uri (cran-uri "prodlim" version))
1487 "1aslq87sqwikh8chxc378r38146y7kv79zz0kcq3j93ivx7va8jb"))))
1488 (build-system r-build-system)
1490 `(("r-kernsmooth" ,r-kernsmooth)
1493 ("r-survival" ,r-survival)))
1494 (home-page "https://cran.r-project.org/web/packages/prodlim")
1495 (synopsis "Product-limit estimation for censored event history analysis")
1497 "This package provides a fast and user-friendly implementation of
1498 nonparametric estimators for censored event history (survival) analysis with
1499 the Kaplan-Meier and Aalen-Johansen methods.")
1500 (license license:gpl2+)))
1502 (define-public r-dimred
1509 (uri (cran-uri "dimRed" version))
1512 "0fasca5fsbrxdwv30hch7vb9snb844l7l8p5fjf239dq45xfy37v"))))
1513 (properties `((upstream-name . "dimRed")))
1514 (build-system r-build-system)
1515 (propagated-inputs `(("r-drr" ,r-drr)))
1516 (home-page "https://github.com/gdkrmr/dimRed")
1517 (synopsis "Framework for dimensionality reduction")
1519 "This package provides a collection of dimensionality reduction
1520 techniques from R packages and provides a common interface for calling the
1522 (license license:gpl3)))
1524 (define-public r-timedate
1527 (version "3043.102")
1531 (uri (cran-uri "timeDate" version))
1534 "0wvl5pq261rvbgly7vilk3x3m9xk3ly6il1i5scwdf6srl1vlz1p"))))
1535 (properties `((upstream-name . "timeDate")))
1536 (build-system r-build-system)
1537 (home-page "https://www.rmetrics.org")
1538 (synopsis "Chronological and calendar objects")
1540 "This package provides an environment for teaching \"Financial
1541 Engineering and Computational Finance\" and for managing chronological and
1543 (license license:gpl2+)))
1545 (define-public r-magic
1552 (uri (cran-uri "magic" version))
1555 "083cgpp3v03li0h8597b3g21pd9lkbmn9pyssblnhc800mpc52vz"))))
1556 (build-system r-build-system)
1558 `(("r-abind" ,r-abind)))
1559 (home-page "https://github.com/RobinHankin/magic.git")
1560 (synopsis "Create and investigate magic squares")
1562 "This package provides a collection of efficient, vectorized algorithms
1563 for the creation and investigation of magic squares and hypercubes, including
1564 a variety of functions for the manipulation and analysis of arbitrarily
1565 dimensioned arrays.")
1566 (license license:gpl2)))
1568 (define-public r-geometry
1575 (uri (cran-uri "geometry" version))
1578 "0s09vi0rr0smys3an83mz6fk41bplxyz4myrbiinf4qpk6n33qib"))))
1579 (build-system r-build-system)
1580 (propagated-inputs `(("r-magic" ,r-magic)))
1581 (home-page "http://geometry.r-forge.r-project.org/")
1582 (synopsis "Mesh generation and surface tesselation")
1584 "This package makes the qhull library available in R, in a similar manner
1585 as in Octave. Qhull computes convex hulls, Delaunay triangulations, halfspace
1586 intersections about a point, Voronoi diagrams, furthest-site Delaunay
1587 triangulations, and furthest-site Voronoi diagrams. It runs in 2-d, 3-d, 4-d,
1588 and higher dimensions. It implements the Quickhull algorithm for computing
1589 the convex hull. Qhull does not support constrained Delaunay triangulations,
1590 or mesh generation of non-convex objects, but the package does include some R
1591 functions that allow for this. Currently the package only gives access to
1592 Delaunay triangulation and convex hull computation.")
1593 ;; The Qhull sources are included and are distributed under a custom
1594 ;; non-copyleft license. The R sources are released under GPL version 2.
1595 (license (list license:gpl2
1596 (license:non-copyleft "http://www.qhull.org/COPYING.txt")))))
1598 (define-public r-ddalpha
1605 (uri (cran-uri "ddalpha" version))
1608 "16cn0bhbaz9l9k4y79sv2d4f7pvs7dyka273y89igs5jvr99kfj1"))))
1609 (build-system r-build-system)
1612 ("r-class" ,r-class)
1613 ("r-geometry" ,r-geometry)
1616 ("r-robustbase" ,r-robustbase)
1617 ("r-sfsmisc" ,r-sfsmisc)))
1619 `(("gfortran" ,gfortran)))
1620 (home-page "https://cran.r-project.org/web/packages/ddalpha")
1621 (synopsis "Depth-Based classification and calculation of data depth")
1623 "This package contains procedures for depth-based supervised learning,
1624 which are entirely non-parametric, in particular the DDalpha-procedure (Lange,
1625 Mosler and Mozharovskyi, 2014). The training data sample is transformed by a
1626 statistical depth function to a compact low-dimensional space, where the final
1627 classification is done. It also offers an extension to functional data and
1628 routines for calculating certain notions of statistical depth functions. 50
1629 multivariate and 5 functional classification problems are included.")
1630 (license license:gpl2)))
1632 (define-public r-gower
1639 (uri (cran-uri "gower" version))
1642 "1mbrj1lam3jfbby2j32shmmj5cn09zx3rkxbamq7q8sdg39b54gb"))))
1643 (build-system r-build-system)
1645 `(("r-knitr" ,r-knitr)))
1646 (home-page "https://github.com/markvanderloo/gower")
1647 (synopsis "Gower's distance")
1649 "This package provides tools to compute Gower's distance (or similarity)
1650 coefficient between records, and to compute the top-n matches between records.
1651 Core algorithms are executed in parallel on systems supporting OpenMP.")
1652 (license license:gpl3)))
1654 (define-public r-rcpproll
1661 (uri (cran-uri "RcppRoll" version))
1664 "0srzfhzkk42kzrdjnhbb37946jp1p688rgysy6k3i2is8jb21zyb"))))
1665 (properties `((upstream-name . "RcppRoll")))
1666 (build-system r-build-system)
1668 `(("r-rcpp" ,r-rcpp)))
1669 (home-page "https://cran.r-project.org/web/packages/RcppRoll")
1670 (synopsis "Efficient rolling and windowed operations")
1672 "This package provides fast and efficient routines for common rolling /
1673 windowed operations. Routines for the efficient computation of windowed mean,
1674 median, sum, product, minimum, maximum, standard deviation and variance are
1676 (license license:gpl2+)))
1678 (define-public r-ipred
1685 (uri (cran-uri "ipred" version))
1688 "1vrw1pqcpnc04x1r2h9grdfm6bivs358sww5gg90jwlvxcw69lxq"))))
1689 (build-system r-build-system)
1691 `(("r-class" ,r-class)
1694 ("r-prodlim" ,r-prodlim)
1695 ("r-rpart" ,r-rpart)
1696 ("r-survival" ,r-survival)))
1697 (home-page "https://cran.r-project.org/web/packages/ipred")
1698 (synopsis "Improved predictors")
1700 "This package provides improved predictive models by indirect
1701 classification and bagging for classification, regression and survival
1702 problems as well as resampling based estimators of prediction error.")
1703 (license license:gpl2+)))
1705 (define-public r-psych
1712 (uri (cran-uri "psych" version))
1715 "1kzv9nc7rwn1sj1zxd8xrbs6c7qlka7j2c8lsr4f20znkd3qx8gf"))))
1716 (build-system r-build-system)
1718 `(("r-foreign" ,r-foreign)
1719 ("r-lattice" ,r-lattice)
1720 ("r-mnormt" ,r-mnormt)
1721 ("r-nlme" ,r-nlme)))
1722 (home-page "https://cran.r-project.org/web/packages/psych/")
1723 (synopsis "Procedures for psychological, psychometric, and personality research")
1725 "This package provides a general purpose toolbox for personality,
1726 psychometric theory and experimental psychology. Functions are primarily for
1727 multivariate analysis and scale construction using factor analysis, principal
1728 component analysis, cluster analysis and reliability analysis, although others
1729 provide basic descriptive statistics. Item Response Theory is done using
1730 factor analysis of tetrachoric and polychoric correlations. Functions for
1731 analyzing data at multiple levels include within and between group statistics,
1732 including correlations and factor analysis. Functions for simulating and
1733 testing particular item and test structures are included. Several functions
1734 serve as a useful front end for structural equation modeling. Graphical
1735 displays of path diagrams, factor analysis and structural equation models are
1736 created using basic graphics.")
1737 (license license:gpl2+)))
1739 (define-public r-broom
1746 (uri (cran-uri "broom" version))
1749 "1mrrqqw1bmjf2v88ziqwb5y86g29h0a3rsx2jpw0hrzrzb8i5kcb"))))
1750 (build-system r-build-system)
1752 `(("r-dplyr" ,r-dplyr)
1755 ("r-psych" ,r-psych)
1756 ("r-reshape2" ,r-reshape2)
1757 ("r-stringr" ,r-stringr)
1758 ("r-tidyr" ,r-tidyr)))
1759 (home-page "https://github.com/tidyverse/broom")
1760 (synopsis "Convert statistical analysis objects into tidy data frames")
1762 "This package provides tools to convert statistical analysis objects from
1763 R into tidy data frames, so that they can more easily be combined, reshaped
1764 and otherwise processed with tools like @code{dplyr}, @code{tidyr} and
1765 @code{ggplot2}. The package provides three S3 generics: @code{tidy}, which
1766 summarizes a model's statistical findings such as coefficients of a
1767 regression; @code{augment}, which adds columns to the original data such as
1768 predictions, residuals and cluster assignments; and @code{glance}, which
1769 provides a one-row summary of model-level statistics.")
1770 (license license:expat)))
1772 (define-public r-recipes
1779 (uri (cran-uri "recipes" version))
1782 "1vqh3pxs4n1azhnd1lzg91vasya6g323kllhbrw177j7kdxqyimy"))))
1783 (build-system r-build-system)
1785 `(("r-broom" ,r-broom)
1786 ("r-ddalpha" ,r-ddalpha)
1787 ("r-dimred" ,r-dimred)
1788 ("r-dplyr" ,r-dplyr)
1789 ("r-gower" ,r-gower)
1790 ("r-ipred" ,r-ipred)
1791 ("r-lubridate" ,r-lubridate)
1792 ("r-magrittr" ,r-magrittr)
1793 ("r-matrix" ,r-matrix)
1795 ("r-purrr" ,r-purrr)
1796 ("r-rcpproll" ,r-rcpproll)
1797 ("r-rlang" ,r-rlang)
1798 ("r-tibble" ,r-tibble)
1799 ("r-tidyselect" ,r-tidyselect)
1800 ("r-timedate" ,r-timedate)))
1801 (home-page "https://github.com/topepo/recipes")
1802 (synopsis "Preprocessing tools to create design matrices")
1804 "Recipes is an extensible framework to create and preprocess design
1805 matrices. Recipes consist of one or more data manipulation and analysis
1806 \"steps\". Statistical parameters for the steps can be estimated from an
1807 initial data set and then applied to other data sets. The resulting design
1808 matrices can then be used as inputs into statistical or machine learning
1810 (license license:gpl2)))
1812 (define-public r-pdist
1819 (uri (cran-uri "pdist" version))
1822 "18nd3mgad11f2zmwcp0w3sxlch4a9y6wp8dfdyzvjn7y4b4bq0dd"))))
1823 (build-system r-build-system)
1824 (home-page "https://github.com/jeffwong/pdist")
1825 (synopsis "Partitioned distance function")
1827 "Pdist computes the euclidean distance between rows of a matrix X and
1828 rows of another matrix Y. Previously, this could be done by binding the two
1829 matrices together and calling @code{dist}, but this creates unnecessary
1830 computation by computing the distances between a row of X and another row of
1831 X, and likewise for Y. Pdist strictly computes distances across the two
1832 matrices, not within the same matrix, making computations significantly faster
1833 for certain use cases.")
1834 (license license:gpl3+)))
1836 (define-public r-ggrepel
1843 (uri (cran-uri "ggrepel" version))
1846 "1m3p84d6nh9mzzvxb82vgig3ngcvkz86rjwzl9a66ckdf5p611k3"))))
1847 (build-system r-build-system)
1849 `(("r-ggplot2" ,r-ggplot2)
1851 ("r-scales" ,r-scales)))
1852 (home-page "http://github.com/slowkow/ggrepel")
1853 (synopsis "Repulsive text and label geometries for ggplot2")
1855 "This package provides text and label geometries for ggplot2 that help to
1856 avoid overlapping text labels. Labels repel away from each other and away
1857 from the data points.")
1858 (license license:gpl3)))
1860 (define-public r-corrplot
1867 (uri (cran-uri "corrplot" version))
1870 "1k03qd8db7pwg1v318xapx5mpiypiz2n07qr19c4b45diri5xkhd"))))
1871 (build-system r-build-system)
1872 (home-page "https://github.com/taiyun/corrplot")
1873 (synopsis "Visualization of a correlation matrix")
1875 "This package provides a graphical display of a correlation matrix or
1876 general matrix. It also contains some algorithms to do matrix reordering. In
1877 addition, corrplot is good at details, including choosing color, text labels,
1878 color labels, layout, etc.")
1879 ;; Any version of the GPL
1880 (license license:gpl2+)))
1882 (define-public r-stringdist
1884 (name "r-stringdist")
1889 (uri (cran-uri "stringdist" version))
1892 "0gap1g9xwhp0zxqsznkc2carpvi80z03prr4q8m528684lznx2xa"))))
1893 (build-system r-build-system)
1894 (home-page "https://github.com/markvanderloo/stringdist")
1895 (synopsis "Approximate string matching and string distance functions")
1897 "This package implements an approximate string matching version of R's
1898 native @code{match} function. It can calculate various string distances based
1899 on edits (Damerau-Levenshtein, Hamming, Levenshtein, optimal sting alignment),
1900 qgrams (q- gram, cosine, jaccard distance) or heuristic metrics (Jaro,
1901 Jaro-Winkler). An implementation of soundex is provided as well. Distances
1902 can be computed between character vectors while taking proper care of encoding
1903 or between integer vectors representing generic sequences.")
1904 (license license:gpl3+)))
1906 (define-public r-jomo
1913 (uri (cran-uri "jomo" version))
1916 "14s8q0j5zgl1g1pfxg3a4y1jzvs0wl61ir4992wsj7safskj7zvi"))))
1917 (build-system r-build-system)
1919 `(("r-lme4" ,r-lme4)
1920 ("r-survival" ,r-survival)))
1921 (home-page "https://cran.r-project.org/web/packages/jomo/")
1922 (synopsis "Multilevel Joint Modelling Multiple Imputation")
1924 "Similarly to Schafer's package pan, jomo is a package for multilevel
1925 joint modelling multiple imputation @url{Carpenter and Kenward (2013),
1926 http://doi.org/10.1002/9781119942283}. Novel aspects of jomo are the
1927 possibility of handling binary and categorical data through latent normal
1928 variables, the option to use cluster-specific covariance matrices and to
1929 impute compatibly with the substantive model.")
1930 (license license:gpl2)))
1932 (define-public r-pan
1939 (uri (cran-uri "pan" version))
1942 "1p3nigmhrnlch86g89hn7l0wvkifx3k9n59g0psi95yck43kza76"))))
1943 (build-system r-build-system)
1944 (native-inputs `(("gfortran" ,gfortran)))
1945 (home-page "https://cran.r-project.org/web/packages/pan/")
1946 (synopsis "Multiple imputation for multivariate panel or clustered data")
1948 "This package implements multiple imputation for multivariate panel or
1950 (license license:gpl3)))
1952 (define-public r-mitml
1959 (uri (cran-uri "mitml" version))
1962 "1pkqv4qazih3byws5z6629pp232n8ra56lip7502727b0b4bsndw"))))
1963 (build-system r-build-system)
1965 `(("r-haven" ,r-haven)
1968 (home-page "https://cran.r-project.org/web/packages/mitml/")
1969 (synopsis "Tools for multiple imputation in multilevel modeling")
1971 "This package provides tools for multiple imputation of missing data in
1972 multilevel modeling. It includes a user-friendly interface to the packages
1973 pan and jomo, and several functions for visualization, data management and the
1974 analysis of multiply imputed data sets.")
1975 (license license:gpl2+)))
1977 (define-public r-mice
1984 (uri (cran-uri "mice" version))
1987 "0xpn215yfzib4hw09cwilnyg9zbvq460njavfvm84mvgwbm25byi"))))
1988 (build-system r-build-system)
1990 `(("r-broom" ,r-broom)
1991 ("r-dplyr" ,r-dplyr)
1992 ("r-lattice" ,r-lattice)
1994 ("r-mitml" ,r-mitml)
1997 ("r-rlang" ,r-rlang)
1998 ("r-rpart" ,r-rpart)
1999 ("r-survival" ,r-survival)))
2000 (home-page "https://cran.r-project.org/web/packages/mice/")
2001 (synopsis "Multivariate imputation by chained equations")
2003 "Multiple imputation using @dfn{Fully Conditional Specification} (FCS)
2004 implemented by the MICE algorithm as described in @url{Van Buuren and
2005 Groothuis-Oudshoorn (2011), http://doi.org/10.18637/jss.v045.i03}. Each
2006 variable has its own imputation model. Built-in imputation models are
2007 provided for continuous data (predictive mean matching, normal), binary
2008 data (logistic regression), unordered categorical data (polytomous logistic
2009 regression) and ordered categorical data (proportional odds). MICE can also
2010 impute continuous two-level data (normal model, pan, second-level variables).
2011 Passive imputation can be used to maintain consistency between variables.
2012 Various diagnostic plots are available to inspect the quality of the
2014 ;; Any of these two versions.
2015 (license (list license:gpl2 license:gpl3))))
2017 (define-public r-truncnorm
2019 (name "r-truncnorm")
2024 (uri (cran-uri "truncnorm" version))
2027 "0zn88wdd58223kibk085rhsikl4yhlrwiyq109hzjg06hy6lwmj9"))))
2028 (build-system r-build-system)
2029 (home-page "https://cran.r-project.org/web/packages/truncnorm/")
2030 (synopsis "Truncated normal distribution")
2031 (description "This package provides functions for the truncated normal
2032 distribution with mean equal to @code{mean} and standard deviation equal to
2033 @code{sd}. It includes density, distribution, quantile, and expected value
2034 functions, as well as a random generation function.")
2035 (license license:gpl2)))
2037 (define-public r-rsolnp
2044 (uri (cran-uri "Rsolnp" version))
2047 "0w7nkj6igr0gi7r7jg950lsx7dj6aipgxi6vbjsf5f5yc9h7fhii"))))
2048 (properties `((upstream-name . "Rsolnp")))
2049 (build-system r-build-system)
2051 `(("r-truncnorm" ,r-truncnorm)))
2052 (home-page "https://cran.r-project.org/web/packages/Rsolnp/")
2053 (synopsis "General non-linear optimization")
2054 (description "The Rsolnp package implements a general non-linear augmented
2055 Lagrange multiplier method solver, a @dfn{sequential quadratic
2056 programming} (SQP) based solver).")
2057 ;; Any version of the GPL.
2058 (license license:gpl2+)))
2060 (define-public r-hardyweinberg
2062 (name "r-hardyweinberg")
2067 (uri (cran-uri "HardyWeinberg" version))
2070 "16n8qanxx0p5ny5zqxafn8hwb1xv94y1wig1iql8as5a5qh8lwcz"))))
2071 (properties `((upstream-name . "HardyWeinberg")))
2072 (build-system r-build-system)
2074 `(("r-mice" ,r-mice)
2076 ("r-rsolnp" ,r-rsolnp)))
2077 (home-page "https://cran.r-project.org/package=HardyWeinberg")
2078 (synopsis "Statistical tests and graphics for Hardy-Weinberg equilibrium")
2080 "This package contains tools for exploring Hardy-Weinberg equilibrium for
2081 diallelic genetic marker data. All classical tests (chi-square, exact,
2082 likelihood-ratio and permutation tests) for Hardy-Weinberg equilibrium are
2083 included in the package, as well as functions for power computation and for
2084 the simulation of marker data under equilibrium and disequilibrium. Routines
2085 for dealing with markers on the X-chromosome are included. Functions for
2086 testing equilibrium in the presence of missing data by using multiple
2087 imputation are also provided. Implements several graphics for exploring the
2088 equilibrium status of a large set of diallelic markers: ternary plots with
2089 acceptance regions, log-ratio plots and Q-Q plots.")
2090 (license license:gpl2+)))
2099 (uri (cran-uri "sm" version))
2102 "1rw2mxygxsmk8mn4wag1ppjgzk0rlvh6zd8q02qrhjrn9jhi5qj3"))))
2103 (build-system r-build-system)
2104 (native-inputs `(("gfortran" ,gfortran)))
2105 (home-page "http://www.stats.gla.ac.uk/~adrian/sm/")
2106 (synopsis "Smoothing methods for nonparametric regression and density estimation")
2108 "This is software accompanying the book 'Applied Smoothing Techniques for
2109 Data Analysis---The Kernel Approach with S-Plus Illustrations', Oxford
2110 University Press. It provides smoothing methods for nonparametric regression
2111 and density estimation")
2112 (license license:gpl2+)))
2114 (define-public r-venndiagram
2116 (name "r-venndiagram")
2120 (uri (cran-uri "VennDiagram" version))
2123 "1ic1jaxzw98si2p4n1fl4n3myhd7fpw0njb634cwhviwybzv6775"))))
2124 (properties `((upstream-name . "VennDiagram")))
2125 (build-system r-build-system)
2127 `(("r-futile-logger" ,r-futile-logger)))
2128 (home-page "https://cran.r-project.org/web/packages/VennDiagram/")
2129 (synopsis "Generate High-Resolution Venn and Euler Plots")
2131 "This package provides a set of functions to generate high-resolution
2132 Venn and Euler plots. It includes handling for several special cases,
2133 including two-case scaling, and extensive customization of plot shape and
2135 (license license:gpl2+)))
2137 (define-public r-vioplot
2144 (uri (cran-uri "vioplot" version))
2147 "16wkb26kv6qr34hv5zgqmgq6zzgysg9i78pvy2c097lr60v087v0"))))
2148 (build-system r-build-system)
2149 (propagated-inputs `(("r-sm" ,r-sm)))
2150 (home-page "http://wsopuppenkiste.wiso.uni-goettingen.de/~dadler")
2151 (synopsis "Violin plot")
2153 "This package provides a violin plot, which is a combination of a box
2154 plot and a kernel density plot.")
2155 (license license:bsd-3)))
2157 (define-public r-rsofia
2163 ;; This package has been removed from CRAN, so we can
2164 ;; only fetch it from the archives.
2165 (uri (string-append "https://cran.r-project.org/src/"
2166 "contrib/Archive/RSofia/RSofia_"
2170 "0q931y9rcf6slb0s2lsxhgqrzy4yqwh8hb1124nxg0bjbxvjbihn"))))
2171 (properties `((upstream-name . "RSofia")))
2172 (build-system r-build-system)
2174 `(("r-rcpp" ,r-rcpp)))
2175 (home-page "https://cran.r-project.org/src/contrib/Archive/RSofia")
2176 (synopsis "Port of sofia-ml to R")
2177 (description "This package is a port of sofia-ml to R. Sofia-ml is a
2178 suite of fast incremental algorithms for machine learning that can be used for
2179 training models for classification or ranking.")
2180 (license license:asl2.0)))
2182 (define-public r-xts
2189 (uri (cran-uri "xts" version))
2192 "1i11fczks4lh8rpi6xbm9bm7f3jpcp6xw03kv178g3n3361qhmc1"))))
2193 (build-system r-build-system)
2194 (propagated-inputs `(("r-zoo" ,r-zoo)))
2195 (native-inputs `(("gfortran" ,gfortran)))
2196 (home-page "https://github.com/joshuaulrich/xts")
2197 (synopsis "Extensible time series")
2199 "This package provides for uniform handling of R's different time-based
2200 data classes by extending @code{zoo}, maximizing native format information
2201 preservation and allowing for user-level customization and extension, while
2202 simplifying cross-class interoperability.")
2203 (license license:gpl2+)))
2205 (define-public r-performanceanalytics
2207 (name "r-performanceanalytics")
2212 (uri (cran-uri "PerformanceAnalytics" version))
2215 "01bgm57z079g6r505w3bj293zkbd49fwa8sg55z87vizwavipml6"))))
2217 `((upstream-name . "PerformanceAnalytics")))
2218 (build-system r-build-system)
2220 `(("r-quadprog" ,r-quadprog)
2223 (home-page "https://r-forge.r-project.org/projects/returnanalytics/")
2224 (synopsis "Econometric tools for performance and risk analysis")
2225 (description "This is a collection of econometric functions for
2226 performance and risk analysis. This package aims to aid practitioners and
2227 researchers in utilizing the latest research in analysis of non-normal return
2228 streams. In general, it is most tested on return (rather than price) data on
2229 a regular scale, but most functions will work with irregular return data as
2230 well, and increasing numbers of functions will work with P&L or price data
2232 ;; Either version may be picked.
2233 (license (list license:gpl2 license:gpl3))))
2235 (define-public r-laeken
2242 (uri (cran-uri "laeken" version))
2245 "1rhkv1kk508pwln1d325iq4fink2ncssps0ypxi52j9d7wk78la6"))))
2246 (build-system r-build-system)
2248 `(("r-boot" ,r-boot)
2249 ("r-mass" ,r-mass)))
2250 (home-page "https://cran.r-project.org/web/packages/laeken/")
2251 (synopsis "Estimation of indicators on social exclusion and poverty")
2252 (description "This package provides tools for the estimation of indicators
2253 on social exclusion and poverty, as well as an implementation of Pareto tail
2254 modeling for empirical income distributions.")
2255 (license license:gpl2+)))
2257 (define-public r-vcd
2264 (uri (cran-uri "vcd" version))
2267 "1lp99h0wvsc61l1dgcqjxdrcgpgw88ak430cdsv43kmm43qssqd5"))))
2268 (build-system r-build-system)
2270 `(("r-colorspace" ,r-colorspace)
2271 ("r-lmtest" ,r-lmtest)
2272 ("r-mass" ,r-mass)))
2273 (home-page "https://cran.r-project.org/web/packages/vcd/")
2274 (synopsis "Visualizing categorical data")
2275 (description "This package provides visualization techniques, data sets,
2276 summary and inference procedures aimed particularly at categorical data.
2277 Special emphasis is given to highly extensible grid graphics. The package was
2278 originally inspired by the book \"Visualizing Categorical Data\" by Michael
2279 Friendly and is now the main support package for a new book, \"Discrete Data
2280 Analysis with R\" by Michael Friendly and David Meyer (2015).")
2281 (license license:gpl2)))
2283 (define-public r-ica
2290 (uri (cran-uri "ica" version))
2293 "0ya1nph1zwhad0bfz4yxs27kl45yk1dhnphdlrq34p8pqrpmj8g7"))))
2294 (build-system r-build-system)
2295 (home-page "https://cran.r-project.org/web/packages/ica/")
2296 (synopsis "Independent component analysis")
2297 (description "This package provides tools for @dfn{Independent Component
2298 Analysis} (ICA) using various algorithms: FastICA,
2299 Information-Maximization (Infomax), and @dfn{Joint Approximate Diagonalization
2300 of Eigenmatrices} (JADE).")
2301 (license license:gpl2+)))
2303 (define-public r-dtw
2310 (uri (cran-uri "dtw" version))
2313 "1w301xwizncy5r8v9rwwdxfshydgp3l1pnjla1fjn6n8lx3imjj3"))))
2314 (build-system r-build-system)
2315 (propagated-inputs `(("r-proxy" ,r-proxy)))
2316 (home-page "http://dtw.r-forge.r-project.org/")
2317 (synopsis "Dynamic Time Warping Algorithms")
2318 (description "This package provides a comprehensive implementation of
2319 @dfn{dynamic time warping} (DTW) algorithms in R. DTW computes the
2320 optimal (least cumulative distance) alignment between points of two time
2321 series. Common DTW variants covered include local (slope) and global (window)
2322 constraints, subsequence matches, arbitrary distance definitions,
2323 normalizations, minimum variance matching, and so on.")
2324 (license license:gpl2+)))
2326 (define-public r-sdmtools
2333 (uri (cran-uri "SDMTools" version))
2336 "1kacrpamshv7wz83yn45sfbw4m9c44xrrngzcklnwx8gcxx2knm6"))))
2337 (properties `((upstream-name . "SDMTools")))
2338 (build-system r-build-system)
2339 (propagated-inputs `(("r-r-utils" ,r-r-utils)))
2340 (home-page "http://www.rforge.net/SDMTools/")
2341 (synopsis "Species distribution modelling tools")
2342 (description "This packages provides a set of tools for post processing
2343 the outcomes of species distribution modeling exercises. It includes novel
2344 methods for comparing models and tracking changes in distributions through
2345 time. It further includes methods for visualizing outcomes, selecting
2346 thresholds, calculating measures of accuracy and landscape fragmentation
2348 (license license:gpl3+)))
2350 (define-public r-scatterplot3d
2352 (name "r-scatterplot3d")
2357 (uri (cran-uri "scatterplot3d" version))
2360 "152xqz9c70qab86mpgng049gxsg5f4fpf1m8dh93fb9v1avjd0sc"))))
2361 (build-system r-build-system)
2362 (home-page "https://cran.r-project.org/web/packages/scatterplot3d/")
2363 (synopsis "3D scatter plot")
2364 (description "This package provides an implementation of scatter plots for
2365 plotting. a three dimensional point cloud.")
2366 (license license:gpl2)))
2368 (define-public r-ggridges
2375 (uri (cran-uri "ggridges" version))
2378 "1znvsbl3px8dddpjgdrygnpz4s685wizi0jnjvx2hrz58i0chjqj"))))
2379 (build-system r-build-system)
2381 `(("r-ggplot2" ,r-ggplot2)
2383 ("r-scales" ,r-scales)
2384 ("r-withr" ,r-withr)))
2385 (home-page "https://github.com/clauswilke/ggridges")
2386 (synopsis "Ridgeline plots in ggplot2")
2388 "Ridgeline plots provide a convenient way of visualizing changes in
2389 distributions over time or space. This package enables the creation of such
2390 plots in @code{ggplot2}.")
2391 (license license:gpl2)))
2393 (define-public r-ggjoy
2400 (uri (cran-uri "ggjoy" version))
2403 "012md2m0jqfcccb933j423m3ck31v3p0pd41gjxpyg9082y7ixyj"))))
2404 (build-system r-build-system)
2406 `(("r-ggplot2" ,r-ggplot2)
2407 ("r-ggridges" ,r-ggridges)))
2408 (home-page "https://github.com/clauswilke/ggjoy")
2409 (synopsis "Joyplots in ggplot2")
2410 (description "Joyplots provide a convenient way of visualizing changes in
2411 distributions over time or space. This package enables the creation of such
2412 plots in @code{ggplot2}.")
2413 (license license:gpl2)))
2415 (define-public r-cli
2422 (uri (cran-uri "cli" version))
2425 "07as3dr7vwx02p3qgzlmxz1dlrd3x3lysrzp222ip9jcjpydp8wg"))))
2426 (build-system r-build-system)
2428 `(("r-assertthat" ,r-assertthat)
2429 ("r-crayon" ,r-crayon)))
2430 (home-page "https://github.com/r-lib/cli#readme")
2431 (synopsis "Helpers for developing command line interfaces")
2432 (description "This package provides a suite of tools designed to build
2433 attractive command line interfaces (CLIs). It includes tools for drawing
2434 rules, boxes, trees, and Unicode symbols with ASCII alternatives.")
2435 (license license:expat)))
2437 (define-public r-argparser
2439 (name "r-argparser")
2444 (uri (cran-uri "argparser" version))
2447 "0s1wxshx4jk69wfxhycx973q6y8cmqrfymyjklhq1i8xrj0kmmx9"))))
2448 (build-system r-build-system)
2449 (home-page "https://bitbucket.org/djhshih/argparser")
2450 (synopsis "Command-line argument parser")
2452 "This package provides a cross-platform command-line argument parser
2453 written purely in R with no external dependencies. It is useful with the
2454 Rscript front-end and facilitates turning an R script into an executable
2456 (license license:gpl3+)))
2458 (define-public r-debugme
2465 (uri (cran-uri "debugme" version))
2468 "1c9sg55zvf10h8198jdnpamm6f66lzw3c3jnmdp9ls6na0j0xbjd"))))
2469 (build-system r-build-system)
2470 (propagated-inputs `(("r-crayon" ,r-crayon)))
2471 (home-page "https://github.com/r-lib/debugme#readme")
2472 (synopsis "Debug R packages")
2474 "This package allows the user to specify debug messages as special string
2475 constants, and control debugging of packages via environment variables.")
2476 (license license:expat)))
2478 (define-public r-processx
2485 (uri (cran-uri "processx" version))
2488 "1pzx4ap4xa07gf9zkd6hacdsnb9sp3kb60a7v7ljl0ywrcpn1fn4"))))
2489 (build-system r-build-system)
2491 `(("r-assertthat" ,r-assertthat)
2492 ("r-crayon" ,r-crayon)
2495 ("r-testthat" ,r-testthat)))
2496 (home-page "https://github.com/r-lib/processx3")
2497 (synopsis "Execute and control system processes")
2499 "This package provides portable tools to run system processes in the
2500 background. It can check if a background process is running; wait on a
2501 background process to finish; get the exit status of finished processes; kill
2502 background processes and their children; restart processes. It can read the
2503 standard output and error of the processes, using non-blocking connections.
2504 @code{processx} can poll a process for standard output or error, with a
2505 timeout. It can also poll several processes at once.")
2506 (license license:expat)))
2508 (define-public r-tsp
2515 (uri (cran-uri "TSP" version))
2518 "1ym97xl2icjpfkrici0wig29w06bb704hp51v7h5liygjlwpkhlc"))))
2519 (properties `((upstream-name . "TSP")))
2520 (build-system r-build-system)
2521 (propagated-inputs `(("r-foreach" ,r-foreach)))
2522 (home-page "https://cran.r-project.org/web/packages/TSP/")
2523 (synopsis "Traveling salesperson problem (TSP)")
2524 (description "This package provides basic infrastructure and some
2525 algorithms for the @dfn{traveling salesperson problem}(TSP) (also known as the
2526 traveling salesman problem).")
2527 (license license:gpl3)))
2529 (define-public r-qap
2536 (uri (cran-uri "qap" version))
2539 "0d2d1ni1camixyi45lfy00f4pn3p063k7bsi8gj5scp6n15mdgb0"))))
2540 (build-system r-build-system)
2541 (native-inputs `(("gfortran" ,gfortran)))
2542 (home-page "https://cran.r-project.org/web/packages/qap/")
2543 (synopsis "Heuristics for the quadratic assignment problem (QAP)")
2544 (description "This package implements heuristics for the @dfn{quadratic
2545 assignment problem} (QAP). Currently only a simulated annealing heuristic is
2547 (license license:gpl3)))
2549 (define-public r-gclus
2556 (uri (cran-uri "gclus" version))
2559 "02ba6zj9bjwrzykamjp40ajynx9xjx9h2i85n0ym0r5lcki4x6fn"))))
2560 (build-system r-build-system)
2561 (propagated-inputs `(("r-cluster" ,r-cluster)))
2562 (home-page "https://cran.r-project.org/web/packages/gclus/")
2563 (synopsis "Clustering graphics")
2564 (description "This package orders panels in scatterplot matrices and
2565 parallel coordinate displays by some merit index. It contains various indices
2566 of merit, ordering functions, and enhanced versions of @code{pairs} and
2567 @code{parcoord} which color panels according to their merit level.")
2568 (license license:gpl2+)))
2570 (define-public r-webshot
2577 (uri (cran-uri "webshot" version))
2580 "07r71zzmggp4jf92x4ws4wg6v1x98vaj01lsar85bnb30n5vx8gh"))))
2581 (build-system r-build-system)
2583 `(("r-jsonlite" ,r-jsonlite)
2584 ("r-magrittr" ,r-magrittr)
2585 ("r-processx" ,r-processx)
2586 ("r-withr" ,r-withr)))
2587 (home-page "https://github.com/wch/webshot/")
2588 (synopsis "Take screenshots of web pages")
2590 "Webshot makes it easy to take screenshots of web pages from within R.
2591 It can also run Shiny applications locally and take screenshots of the
2592 application; and it can render and screenshot static as well as interactive R
2593 Markdown documents.")
2594 (license license:gpl2)))
2596 (define-public r-seriation
2598 (name "r-seriation")
2603 (uri (cran-uri "seriation" version))
2606 "1q6hw4hjw224b4y0dc0j630v2pgj6sn455nwkilb70w8k31hpk92"))))
2607 (build-system r-build-system)
2609 `(("r-cluster" ,r-cluster)
2610 ("r-colorspace" ,r-colorspace)
2611 ("r-dendextend" ,r-dendextend)
2612 ("r-gclus" ,r-gclus)
2613 ("r-gplots" ,r-gplots)
2616 ("r-registry" ,r-registry)
2618 (native-inputs `(("gfortran" ,gfortran)))
2619 (home-page "http://s2.smu.edu/IDA/seriation/")
2620 (synopsis "Infrastructure for ordering objects using seriation")
2622 "This package provides infrastructure for seriation with an
2623 implementation of several seriation/sequencing techniques to reorder matrices,
2624 dissimilarity matrices, and dendrograms. It also provides (optimally)
2625 reordered heatmaps, color images and clustering visualizations like
2626 dissimilarity plots, and visual assessment of cluster tendency plots (VAT and
2628 (license license:gpl3)))
2630 (define-public r-xfun
2637 (uri (cran-uri "xfun" version))
2640 "1r11dd49ngmjgbjdv28a9c1jp8cg1l50x0acbsamzz576p8i2wl9"))))
2641 (build-system r-build-system)
2642 (home-page "https://github.com/yihui/xfun")
2643 (synopsis "Miscellaneous functions")
2645 "This package provides miscellaneous functions commonly used in other
2646 packages maintained by Yihui Xie.")
2647 (license license:expat)))
2649 (define-public r-utf8
2656 (uri (cran-uri "utf8" version))
2659 "0m0ywg8k3blfiahxvh1i4zn9dksrlc937d2lbza5fc38zjnrrnpn"))))
2660 (build-system r-build-system)
2661 (home-page "https://github.com/patperry/r-utf8")
2662 (synopsis "Unicode text processing")
2664 "This package provides tools to process and print UTF-8 encoded
2665 international text (Unicode). Input, validate, normalize, encode, format, and
2667 (license license:asl2.0)))
2669 (define-public r-pillar
2676 (uri (cran-uri "pillar" version))
2679 "1rzhssprqgam1nq3s0f5rzxhxsq02azcghvxf6k8kmsmddf1n7f8"))))
2680 (build-system r-build-system)
2683 ("r-crayon" ,r-crayon)
2684 ("r-rlang" ,r-rlang)
2685 ("r-utf8" ,r-utf8)))
2686 (home-page "https://github.com/r-lib/pillar")
2687 (synopsis "Coloured formatting for columns")
2689 "This package provides a @code{pillar} generic designed for formatting
2690 columns of data using the full range of colours provided by modern
2692 (license license:gpl3)))
2694 (define-public r-uuid
2701 (uri (cran-uri "uuid" version))
2704 "1gmisd630fc8ybg845hbg13wmm3pk3npaamrh5wqbc1nqd6p0wfx"))))
2705 (build-system r-build-system)
2706 (home-page "http://www.rforge.net/uuid")
2707 (synopsis "Tools for generating and handling of UUIDs")
2709 "This package provides tools for generating and handling of
2710 @dfn{Universally Unique Identifiers} (UUIDs).")
2711 (license license:expat)))
2713 (define-public r-tinytex
2720 (uri (cran-uri "tinytex" version))
2723 "16y9dldaff2kx1fkm92p7zlph0dcrdmlmavpdgf5y9jbhmc8g83f"))))
2724 (build-system r-build-system)
2726 `(("r-xfun" ,r-xfun)))
2727 (home-page "https://github.com/yihui/tinytex")
2728 (synopsis "Helper functions for TeX Live and compiling LaTeX documents")
2730 "This package provides helper functions to install and maintain the LaTeX
2731 distribution named TinyTeX, a lightweight, cross-platform, portable, and
2732 easy-to-maintain version of TeX Live. This package also contains helper
2733 functions to compile LaTeX documents, and install missing LaTeX packages
2735 (license license:expat)))
2737 (define-public r-metap
2744 (uri (cran-uri "metap" version))
2747 "03vg0mb6q7j2z0pkxykbak0hcp6dcak7zxs1lw9hswz9kqrq5jhz"))))
2748 (build-system r-build-system)
2750 `(("r-lattice" ,r-lattice)))
2751 (home-page "http://www.dewey.myzen.co.uk/meta/meta.html")
2752 (synopsis "Meta-analysis of significance values")
2754 "The canonical way to perform meta-analysis involves using effect sizes.
2755 When they are not available this package provides a number of methods for
2756 meta-analysis of significance values including the methods of Edgington,
2757 Fisher, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate
2758 published results; and a routine for graphical display.")
2759 (license license:gpl2)))
2761 (define-public r-network
2764 (version "1.13.0.1")
2768 (uri (cran-uri "network" version))
2771 "1bbkbqkqf1d7irfwh08c13c2pfypir1ssvlqrln83irqns1ikdv0"))))
2772 (build-system r-build-system)
2773 (home-page "https://statnet.org/")
2774 (synopsis "Classes for relational data")
2776 "This package provides tools to create and modify network objects. The
2777 @code{network} class can represent a range of relational data types, and
2778 supports arbitrary vertex/edge/graph attributes.")
2779 (license license:gpl2+)))
2781 (define-public r-statnet-common
2783 (name "r-statnet-common")
2788 (uri (cran-uri "statnet.common" version))
2791 "0h3g687214rlycca0fjrpy1lqbqsrginxqhmhl2mb2jinqqxcfgd"))))
2793 `((upstream-name . "statnet.common")))
2794 (build-system r-build-system)
2796 `(("r-coda" ,r-coda)))
2797 (home-page "https://statnet.org")
2798 (synopsis "R scripts and utilities used by the Statnet software")
2799 (description "This package provides non-statistical utilities used by the
2800 software developed by the Statnet Project.")
2801 (license license:gpl3)))
2803 (define-public r-sna
2810 (uri (cran-uri "sna" version))
2813 "1ks8819qvpdfansfqj9p32s1rhvl26frvbi78m4rx1wd1qcv74i2"))))
2814 (build-system r-build-system)
2816 `(("r-network" ,r-network)
2817 ("r-statnet-common" ,r-statnet-common)))
2818 (home-page "https://statnet.org")
2819 (synopsis "Tools for social network analysis")
2821 "This package provides a range of tools for social network analysis,
2822 including node and graph-level indices, structural distance and covariance
2823 methods, structural equivalence detection, network regression, random graph
2824 generation, and 2D/3D network visualization.")
2825 (license license:gpl2+)))
2827 (define-public r-ttr
2834 (uri (cran-uri "TTR" version))
2837 "07r62ngyzjl4aszdxnr3n6bnbcgcap32yhd430jsilicg8n06di1"))))
2838 (properties `((upstream-name . "TTR")))
2839 (build-system r-build-system)
2841 `(("r-curl" ,r-curl)
2844 (native-inputs `(("gfortran" ,gfortran)))
2845 (home-page "https://github.com/joshuaulrich/TTR")
2846 (synopsis "Technical trading rules")
2848 "This package provides functions and data to construct technical trading
2850 (license license:gpl2)))
2852 (define-public r-leaps
2859 (uri (cran-uri "leaps" version))
2862 "11gjmn1azrjw5xlvdb4gknj9985kck9x8zb9np1rnk2smp6pka2m"))))
2863 (build-system r-build-system)
2864 (native-inputs `(("gfortran" ,gfortran)))
2865 (home-page "https://cran.r-project.org/web/packages/leaps/")
2866 (synopsis "Regression subset selection")
2868 "This package provides tools for regression subset selection, including
2869 exhaustive search.")
2870 (license license:gpl2+)))
2872 (define-public r-splus2r
2879 (uri (cran-uri "splus2R" version))
2882 "0xrbj8vxy0pc6hl7m8abv71d3hjw47cl51s7j7priadyqczkq6sz"))))
2883 (properties `((upstream-name . "splus2R")))
2884 (build-system r-build-system)
2885 (native-inputs `(("gfortran" ,gfortran)))
2886 (home-page "https://cran.r-project.org/web/packages/splus2R/")
2887 (synopsis "Supplemental S-PLUS functionality in R")
2889 "Currently there are many functions in S-PLUS that are missing in R. To
2890 facilitate the conversion of S-PLUS packages to R packages, this package
2891 provides some missing S-PLUS functionality in R.")
2892 (license license:gpl2)))
2894 (define-public r-ifultools
2896 (name "r-ifultools")
2901 (uri (cran-uri "ifultools" version))
2904 "0pv2msaa1rmj8csxdclzi2jwg9pfdvh87blj9j3xa3myisglq092"))))
2905 (build-system r-build-system)
2907 `(("r-mass" ,r-mass)
2908 ("r-splus2r" ,r-splus2r)))
2909 (home-page "https://cran.r-project.org/web/packages/ifultools/")
2910 (synopsis "Insightful research tools")
2911 (description "This package provides C code used by the wmtsa, fractal, and
2913 (license license:gpl2)))
2915 (define-public r-sapa
2922 (uri (cran-uri "sapa" version))
2925 "056xlh14dnzq4x7sbp7ff2k61jxy7110a742b502vz549qfrr5ds"))))
2926 (build-system r-build-system)
2928 `(("r-ifultools" ,r-ifultools)
2929 ("r-splus2r" ,r-splus2r)))
2930 (home-page "https://cran.r-project.org/web/packages/sapa/")
2931 (synopsis "Spectral analysis for physical applications")
2932 (description "This package provides software for the book Spectral
2933 Analysis for Physical Applications, Donald B. Percival and Andrew T. Walden,
2934 Cambridge University Press, 1993.")
2935 (license license:gpl2)))
2937 (define-public r-quantmod
2944 (uri (cran-uri "quantmod" version))
2947 "16aldg96z7amp5mr90nb8127yy04gxsihfr26km5p3cx3j117yv0"))))
2948 (build-system r-build-system)
2950 `(("r-curl" ,r-curl)
2954 (home-page "https://cran.r-project.org/web/packages/quantmod/")
2955 (synopsis "Quantitative financial modelling framework")
2956 (description "This package provides a quantitative financial modelling
2957 framework to allow users to specify, build, trade, and analyse quantitative
2958 financial trading strategies.")
2959 (license license:gpl3)))
2961 (define-public r-tseries
2968 (uri (cran-uri "tseries" version))
2971 "14s1glh5zzdvdl05a2z7ymhgf962svxf8xircghg5sc649lb33n0"))))
2972 (build-system r-build-system)
2974 `(("r-quadprog" ,r-quadprog)
2975 ("r-quantmod" ,r-quantmod)
2978 `(("gfortran" ,gfortran)))
2979 (home-page "https://cran.r-project.org/web/packages/tseries/")
2980 (synopsis "Time series analysis and computational finance")
2982 "This package provides functions relating to time series analysis and
2983 computational finance.")
2984 (license license:gpl2)))
2986 (define-public r-wmtsa
2993 (uri (cran-uri "wmtsa" version))
2996 "1q436krz5p1f4a7a7sya6a9rh9x9mi8zzcgq66gbk9w9w4hcqcj6"))))
2997 (build-system r-build-system)
2999 `(("r-ifultools" ,r-ifultools)
3001 ("r-splus2r" ,r-splus2r)))
3002 (home-page "https://cran.r-project.org/web/packages/wmtsa/")
3003 (synopsis "Wavelet methods for time series analysis")
3005 "This package provides software to accompany the book \"Wavelet Methods
3006 for Time Series Analysis\", Donald B. Percival and Andrew T. Walden, Cambridge
3007 University Press, 2000.")
3008 (license license:gpl2)))
3010 (define-public r-tsa
3017 (uri (cran-uri "TSA" version))
3020 "0cm97hwxm6vfgy9mc3kgwq6dnmn86p8a4avnfjbai048qnwrn6hx"))))
3021 (properties `((upstream-name . "TSA")))
3022 (build-system r-build-system)
3024 `(("r-leaps" ,r-leaps)
3025 ("r-locfit" ,r-locfit)
3027 ("r-tseries" ,r-tseries)))
3028 (home-page "http://www.stat.uiowa.edu/~kchan/TSA.htm")
3029 (synopsis "Time series analysis")
3031 "This package contains R functions and datasets detailed in the book
3032 \"Time Series Analysis with Applications in R (second edition)\" by Jonathan
3033 Cryer and Kung-Sik Chan.")
3034 (license license:gpl2+)))
3036 (define-public r-extradistr
3038 (name "r-extradistr")
3043 (uri (cran-uri "extraDistr" version))
3046 "1fg8vjpal33y51iqzglk1yvy46d7js0l0wfbdy698lq8a06hq19p"))))
3047 (properties `((upstream-name . "extraDistr")))
3048 (build-system r-build-system)
3050 `(("r-rcpp" ,r-rcpp)))
3051 (home-page "https://github.com/twolodzko/extraDistr")
3052 (synopsis "Additional univariate and multivariate distributions")
3054 "This package implements density, distribution functions, quantile
3055 functions and random generation functions for a large number of univariate and
3056 multivariate distributions.")
3057 (license license:gpl2)))
3059 (define-public r-fractal
3066 (uri (cran-uri "fractal" version))
3069 "18lr9z0gslvfc3z8vyj3krqj3bfhg60zv1fzinrwwkc4cpk1w7mp"))))
3070 (build-system r-build-system)
3072 `(("r-ifultools" ,r-ifultools)
3075 ("r-scatterplot3d" ,r-scatterplot3d)
3076 ("r-splus2r" ,r-splus2r)
3077 ("r-wmtsa" ,r-wmtsa)))
3078 (home-page "https://cran.r-project.org/web/packages/fractal/")
3079 (synopsis "Fractal time series modeling and analysis")
3081 "This package provides tools for stochastic fractal and deterministic
3082 chaotic time series analysis.")
3083 (license license:gpl2)))
3085 (define-public r-urca
3092 (uri (cran-uri "urca" version))
3095 "1akaqwf3fvvvx4sgfn641fd4sj51s0701pvfl6s5hnz2k0iwh732"))))
3096 (build-system r-build-system)
3097 (propagated-inputs `(("r-nlme" ,r-nlme)))
3098 (native-inputs `(("gfortran" ,gfortran)))
3099 (home-page "https://cran.r-project.org/web/packages/urca/")
3100 (synopsis "Unit root and cointegration tests for time series data")
3102 "This package provides unit root and cointegration tests encountered in
3103 applied econometric analysis.")
3104 (license license:gpl2+)))
3106 (define-public r-cubature
3113 (uri (cran-uri "cubature" version))
3116 "1hd23b8v2kpqp5gr0va8p2q7j8w9rik6ks7zrr4b8mb2mwrakk74"))))
3117 (build-system r-build-system)
3119 `(("r-rcpp" ,r-rcpp)))
3120 (home-page "https://github.com/bnaras/cubature")
3121 (synopsis "Adaptive multivariate integration over hypercubes")
3123 "This package is an R wrapper around the cubature C library for adaptive
3124 multivariate integration over hypercubes. This version provides both
3125 @code{hcubature} and @code{pcubature} routines in addition to a vector
3127 ;; The included cubature C library is released under GPLv2+, but the
3128 ;; wrapper declares the license to be GPLv3+.
3129 (license (list license:gpl2+ license:gpl3+))))
3131 (define-public r-trend
3138 (uri (cran-uri "trend" version))
3141 "1bd567n15k2vpmgbx02584k5kglrc58mlb5kgd07wdss3knpa48q"))))
3142 (build-system r-build-system)
3144 `(("r-extradistr" ,r-extradistr)))
3146 `(("gfortran" ,gfortran)))
3147 (home-page "https://cran.r-project.org/web/packages/trend/")
3148 (synopsis "Non-parametric trend tests and change-point detection")
3150 "The analysis of environmental data often requires the detection of
3151 trends and change-points. This package includes tests for trend
3152 detection (Cox-Stuart Trend Test, Mann-Kendall Trend Test, (correlated)
3153 Hirsch-Slack Test, partial Mann-Kendall Trend Test, multivariate (multisite)
3154 Mann-Kendall Trend Test, (Seasonal) Sen's slope, partial Pearson and Spearman
3155 correlation trend test), change-point detection (Lanzante's test procedures,
3156 Pettitt's test, Buishand Range Test, Buishand U Test, Standard Normal
3157 Homogeinity Test), detection of non-randomness (Wallis-Moore Phase Frequency
3158 Test, Bartels rank von Neumann's ratio test, Wald-Wolfowitz Test) and the two
3159 sample Robust Rank-Order Distributional Test.")
3160 (license license:gpl3)))
3162 (define-public r-expm
3169 (uri (cran-uri "expm" version))
3172 "1mihl67kvv1xv0figp25jkmwfn4iwkcx15cng2348y8gm6zybw9q"))))
3173 (build-system r-build-system)
3174 (propagated-inputs `(("r-matrix" ,r-matrix)))
3175 (native-inputs `(("gfortran" ,gfortran)))
3176 (home-page "https://r-forge.r-project.org/projects/expm/")
3177 (synopsis "Tools for matrix exponentials and related quantities")
3179 "This package provides tools for the computation of the matrix
3180 exponential, logarithm, square root, and related quantities.")
3181 (license license:gpl2+)))
3183 (define-public r-complexplus
3185 (name "r-complexplus")
3190 (uri (cran-uri "complexplus" version))
3193 "16w9v7d1ckavqmr86l34frr37pkvdn0iqnb17ssb8xaggns5lgqx"))))
3194 (build-system r-build-system)
3196 `(("r-expm" ,r-expm)
3197 ("r-matrix" ,r-matrix)))
3198 (home-page "https://cran.r-project.org/web/packages/complexplus/")
3199 (synopsis "Functions of complex or real variables")
3201 "This package extends several functions to the complex domain, including
3202 the matrix exponential and logarithm, and the determinant.")
3203 (license license:gpl2)))
3205 (define-public r-phontools
3207 (name "r-phontools")
3212 (uri (cran-uri "phonTools" version))
3215 "01i481mhswsys3gpasw9gn6nxkfmi7bz46g5c84m13pg0cv8hxc7"))))
3216 (properties `((upstream-name . "phonTools")))
3217 (build-system r-build-system)
3218 (home-page "http://www.santiagobarreda.com/rscripts.html")
3219 (synopsis "Tools for phonetic and acoustic analyses")
3221 "This package contains tools for the organization, display, and analysis
3222 of the sorts of data frequently encountered in phonetics research and
3223 experimentation, including the easy creation of IPA vowel plots, and the
3224 creation and manipulation of WAVE audio files.")
3225 (license license:bsd-2)))
3234 (uri (cran-uri "np" version))
3237 "17h67a510wh83800ri6g02wvznrlhigxni8shyijz1iaxcpk8k4j"))))
3238 (build-system r-build-system)
3240 `(("r-boot" ,r-boot)
3241 ("r-cubature" ,r-cubature)
3242 ("r-quadprog" ,r-quadprog)
3243 ("r-quantreg" ,r-quantreg)))
3244 (home-page "https://github.com/JeffreyRacine/R-Package-np")
3245 (synopsis "Non-parametric kernel smoothing methods for mixed data types")
3246 (description "This package provides non-parametric (and semi-parametric)
3247 kernel methods that seamlessly handle a mix of continuous, unordered, and
3248 ordered factor data types.")
3249 ;; Any version of the GPL.
3250 (license license:gpl3+)))
3252 (define-public r-powerplus
3254 (name "r-powerplus")
3259 (uri (cran-uri "powerplus" version))
3262 "0ayp6x34hkzgris4j3zbbs0r23n81bhww3wgfyy630ri4sk6brrn"))))
3263 (build-system r-build-system)
3265 `(("r-complexplus" ,r-complexplus)
3268 ("r-matrix" ,r-matrix)
3269 ("r-phontools" ,r-phontools)))
3270 (home-page "https://cran.r-project.org/web/packages/powerplus/")
3271 (synopsis "Exponentiation operations")
3273 "This package provides tools for the computation of matrix and scalar
3275 (license license:gpl2)))
3277 (define-public r-heatmaply
3279 (name "r-heatmaply")
3284 (uri (cran-uri "heatmaply" version))
3287 "03p2caclhfgqgpx3wwck5h06jy3mxgs05gjmwkb7hmwghkjh41jc"))))
3288 (build-system r-build-system)
3290 `(("r-assertthat" ,r-assertthat)
3291 ("r-colorspace" ,r-colorspace)
3292 ("r-dendextend" ,r-dendextend)
3293 ("r-ggplot2" ,r-ggplot2)
3294 ("r-gplots" ,r-gplots)
3295 ("r-htmlwidgets" ,r-htmlwidgets)
3296 ("r-knitr" ,r-knitr) ; needed for vignettes
3297 ("r-magrittr" ,r-magrittr)
3298 ("r-plotly" ,r-plotly)
3299 ("r-rcolorbrewer" ,r-rcolorbrewer)
3300 ("r-reshape2" ,r-reshape2)
3301 ("r-scales" ,r-scales)
3302 ("r-seriation" ,r-seriation)
3303 ("r-viridis" ,r-viridis)
3304 ("r-webshot" ,r-webshot)))
3305 (home-page "https://cran.r-project.org/package=heatmaply")
3306 (synopsis "Interactive cluster heat maps using plotly")
3308 "This package enables you to create interactive cluster heatmaps that can
3309 be saved as a stand-alone HTML file, embedded in R Markdown documents or in a
3310 Shiny app, and made available in the RStudio viewer pane. Hover the mouse
3311 pointer over a cell to show details or drag a rectangle to zoom. A heatmap is
3312 a popular graphical method for visualizing high-dimensional data, in which a
3313 table of numbers is encoded as a grid of colored cells. The rows and columns
3314 of the matrix are ordered to highlight patterns and are often accompanied by
3316 ;; Either version of the license.
3317 (license (list license:gpl2 license:gpl3))))
3319 (define-public r-cgdsr
3326 (uri (cran-uri "cgdsr" version))
3329 "1xyhw7mhmjichr1l6f9y1qvfj9wm87kfbm87ji7lcwf36gxh5g23"))))
3330 (build-system r-build-system)
3332 `(("r-r-methodss3" ,r-r-methodss3)
3333 ("r-r-oo" ,r-r-oo)))
3334 (home-page "https://github.com/cBioPortal/cgdsr")
3335 (synopsis "R-based API for accessing the MSKCC Cancer Genomics Data Server")
3337 "This package provides a basic set of R functions for querying the Cancer
3338 Genomics Data Server (CGDS), hosted by the Computational Biology Center at
3339 Memorial-Sloan-Kettering Cancer Center (MSKCC).")
3340 (license license:lgpl3)))
3342 (define-public r-import
3349 (uri (cran-uri "import" version))
3352 "0blf9539rbfwcmw8zsb4k58slb4pdnc075v34vmyjw752fznhcji"))))
3353 (build-system r-build-system)
3354 (home-page "https://github.com/smbache/import")
3355 (synopsis "Import mechanism for R")
3357 "This is an alternative mechanism for importing objects from packages.
3358 The syntax allows for importing multiple objects from a package with a single
3359 command in an expressive way. The import package bridges some of the gap
3360 between using @code{library} (or @code{require}) and direct (single-object)
3361 imports. Furthermore the imported objects are not placed in the current
3362 environment. It is also possible to import objects from stand-alone @code{.R}
3364 (license license:expat)))
3366 (define-public r-shinyace
3373 (uri (cran-uri "shinyAce" version))
3376 "1hqgszbiv99dibhwr21v21ll4s2hjn3ccqdicsm0z3gk77bh8iyb"))))
3377 (properties `((upstream-name . "shinyAce")))
3378 (build-system r-build-system)
3380 `(("r-shiny" ,r-shiny)
3381 ("r-jsonlite" ,r-jsonlite)))
3382 (home-page "http://cran.r-project.org/web/packages/shinyAce")
3383 (synopsis "Ace editor bindings for Shiny")
3385 "This package provides Ace editor bindings to enable a rich text editing
3386 environment within Shiny.")
3387 (license license:expat)))
3389 (define-public r-radiant-data
3391 (name "r-radiant-data")
3396 (uri (cran-uri "radiant.data" version))
3399 "0mbxfqn79nphii4hb6kxl2wc0w0ra16y378rp2yw9a9926zdb7mb"))
3400 (modules '((guix build utils)))
3403 ;; Delete files that are under CC-NC-SA.
3404 (delete-file-recursively "inst/app/tools/help")
3406 (properties `((upstream-name . "radiant.data")))
3407 (build-system r-build-system)
3409 `(("r-base64enc" ,r-base64enc)
3410 ("r-broom" ,r-broom)
3413 ("r-dplyr" ,r-dplyr)
3416 ("r-ggplot2" ,r-ggplot2)
3417 ("r-gridextra" ,r-gridextra)
3418 ("r-import" ,r-import)
3419 ("r-jsonlite" ,r-jsonlite)
3420 ("r-knitr" ,r-knitr)
3421 ("r-lubridate" ,r-lubridate)
3422 ("r-magrittr" ,r-magrittr)
3423 ("r-markdown" ,r-markdown)
3424 ("r-plotly" ,r-plotly)
3425 ("r-psych" ,r-psych)
3426 ("r-readr" ,r-readr)
3427 ("r-readxl" ,r-readxl)
3428 ("r-rlang" ,r-rlang)
3429 ("r-rmarkdown" ,r-rmarkdown)
3430 ("r-rstudioapi" ,r-rstudioapi)
3431 ("r-scales" ,r-scales)
3432 ("r-shiny" ,r-shiny)
3433 ("r-shinyace" ,r-shinyace)
3434 ("r-tibble" ,r-tibble)
3435 ("r-tidyr" ,r-tidyr)
3436 ("r-writexl" ,r-writexl)))
3437 (home-page "https://github.com/radiant-rstats/radiant.data")
3438 (synopsis "Data menu for Radiant: business analytics using R and Shiny")
3440 "The Radiant Data menu includes interfaces for loading, saving, viewing,
3441 visualizing, summarizing, transforming, and combining data. It also contains
3442 functionality to generate reproducible reports of the analyses conducted in
3444 (license license:agpl3)))
3446 (define-public r-algdesign
3448 (name "r-algdesign")
3453 (uri (cran-uri "AlgDesign" version))
3456 "0bl7mx4dnmkgs2x1fj7cqnrp7jx18mqwxyga0rzlniq12h8mc3fz"))))
3457 (properties `((upstream-name . "AlgDesign")))
3458 (build-system r-build-system)
3459 (home-page "https://github.com/jvbraun/AlgDesign")
3460 (synopsis "Algorithmic experimental design")
3462 "This package provides tools to calculate exact and approximate theory
3463 experimental designs for D, A, and I criteria. Very large designs may be
3464 created. Experimental designs may be blocked or blocked designs created from
3465 a candidate list, using several criteria. The blocking can be done when whole
3466 and within plot factors interact.")
3467 (license license:gpl2+)))
3469 (define-public r-signal
3476 (uri (cran-uri "signal" version))
3479 "1vsxramz5qd9q9s3vlqzmfdpmwl2rhlb2n904zw6f0fg0xxjfq3b"))))
3480 (build-system r-build-system)
3481 (propagated-inputs `(("r-mass" ,r-mass)))
3482 (native-inputs `(("gfortran" ,gfortran)))
3483 (home-page "https://cran.r-project.org/web/packages/signal/")
3484 (synopsis "Signal processing")
3486 "This package provides a set of signal processing functions originally
3487 written for Matlab and GNU Octave. It includes filter generation utilities,
3488 filtering functions, resampling routines, and visualization of filter models.
3489 It also includes interpolation functions.")
3490 (license license:gpl2)))
3492 (define-public r-gsubfn
3499 (uri (cran-uri "gsubfn" version))
3502 "00j6b8b6xsx6v370h220x233rpk6asca78165y3d48jpwvwisdc9"))))
3503 (build-system r-build-system)
3504 (propagated-inputs `(("r-proto" ,r-proto)))
3505 (home-page "http://gsubfn.googlecode.com")
3506 (synopsis "Utilities for strings and function arguments.")
3508 "This package provides @code{gsubfn} which is like @code{gsub} but can
3509 take a replacement function or certain other objects instead of the
3510 replacement string. Matches and back references are input to the replacement
3511 function and replaced by the function output. @code{gsubfn} can be used to
3512 split strings based on content rather than delimiters and for quasi-perl-style
3513 string interpolation. The package also has facilities for translating
3514 formulas to functions and allowing such formulas in function calls instead of
3516 (license license:gpl2+)))
3518 (define-public r-sqldf
3525 (uri (cran-uri "sqldf" version))
3528 "0q12vsb53p2wchgp8wfz5bk08wfnm0jxjrakclj4jyy6x3a7ksff"))))
3529 (build-system r-build-system)
3531 `(("r-chron" ,r-chron)
3533 ("r-gsubfn" ,r-gsubfn)
3534 ("r-proto" ,r-proto)
3535 ("r-rsqlite" ,r-rsqlite)))
3536 (home-page "https://github.com/ggrothendieck/sqldf")
3537 (synopsis "Manipulate R data frames using SQL")
3539 "The @code{sqldf} function is typically passed a single argument which is
3540 an SQL select statement where the table names are ordinary R data frame names.
3541 @code{sqldf} transparently sets up a database, imports the data frames into
3542 that database, performs the SQL statement and returns the result using a
3543 heuristic to determine which class to assign to each column of the returned
3544 data frame. The @code{sqldf} or @code{read.csv.sql} functions can also be
3545 used to read filtered files into R even if the original files are larger than
3546 R itself can handle.")
3547 (license license:gpl2)))
3549 (define-public r-abind
3556 (uri (cran-uri "abind" version))
3559 "0b1zd8jbnl6l292cr9rb50m09fy3ylxvzkpgi5lfb1nbzddcwfis"))))
3560 (build-system r-build-system)
3561 (home-page "https://cran.r-project.org/web/packages/abind/")
3562 (synopsis "Combine multidimensional arrays")
3564 "This package provides tools to combine multidimensional arrays into a
3565 single array. This is a generalization of @code{cbind} and @code{rbind}. It
3566 works with vectors, matrices, and higher-dimensional arrays. It also provides
3567 the functions @code{adrop}, @code{asub}, and @code{afill} for manipulating,
3568 extracting and replacing data in arrays.")
3569 (license license:lgpl2.0+)))
3571 (define-public r-prroc
3578 (uri (cran-uri "PRROC" version))
3581 "1m28h8pcd78049lz2qixhkcr9h5b3jik3maqzfbvq9y58z71i4a7"))))
3582 (properties `((upstream-name . "PRROC")))
3583 (build-system r-build-system)
3584 (home-page "https://cran.r-project.org/web/packages/PRROC/")
3585 (synopsis "Precision-Recall and ROC curves for weighted and unweighted data")
3587 "This package computes the areas under the @dfn{precision-recall} (PR)
3588 and ROC curve for weighted (e.g. soft-labeled) and unweighted data. In
3589 contrast to other implementations, the interpolation between points of the PR
3590 curve is done by a non-linear piecewise function. In addition to the areas
3591 under the curves, the curves themselves can also be computed and plotted by a
3592 specific S3-method.")
3593 (license license:gpl3)))
3595 (define-public r-vim
3602 (uri (cran-uri "VIM" version))
3605 "1vjcs5wvjv94ln01d94h9rs4j50d3ky4n26mm3prgh13raylrmnd"))))
3606 (properties `((upstream-name . "VIM")))
3607 (build-system r-build-system)
3610 ("r-colorspace" ,r-colorspace)
3611 ("r-data-table" ,r-data-table)
3612 ("r-e1071" ,r-e1071)
3613 ("r-laeken" ,r-laeken)
3617 ("r-robustbase" ,r-robustbase)
3620 (home-page "https://github.com/alexkowa/VIM")
3621 (synopsis "Visualization and imputation of missing values")
3623 "This package provides tools for the visualization of missing and/or
3624 imputed values are introduced, which can be used for exploring the data and
3625 the structure of the missing and/or imputed values. Depending on this
3626 structure of the missing values, the corresponding methods may help to
3627 identify the mechanism generating the missing values and allows to explore the
3628 data including missing values. In addition, the quality of imputation can be
3629 visually explored using various univariate, bivariate, multiple and
3630 multivariate plot methods.")
3631 (license license:gpl2+)))
3633 (define-public r-fnn
3640 (uri (cran-uri "FNN" version))
3643 "1kncmiaraq1mrykb9fj3fsxswabk3l71fnp1vks0x9aay5xfk8mj"))))
3644 (properties `((upstream-name . "FNN")))
3645 (build-system r-build-system)
3646 (home-page "https://cran.r-project.org/web/packages/FNN")
3647 (synopsis "Fast nearest neighbor search algorithms and applications")
3649 "This package provides cover-tree and kd-tree fast k-nearest neighbor
3650 search algorithms. Related applications including KNN classification,
3651 regression and information measures are implemented.")
3652 ;; The DESCRIPTION file erroneously states that GPL version 2.1 or
3653 ;; later can be used.
3654 (license license:gpl2+)))
3656 (define-public r-smoother
3663 (uri (cran-uri "smoother" version))
3666 "0nqr1bvlr5bnasqg74zmknjjl4x28kla9h5cxpga3kq5z215pdci"))))
3667 (build-system r-build-system)
3669 `(("r-ttr" ,r-ttr)))
3670 (home-page "http://cran.r-project.org/web/packages/smoother")
3671 (synopsis "Functions relating to the smoothing of numerical data")
3673 "This package provides a collection of methods for smoothing numerical
3674 data, commencing with a port of the Matlab gaussian window smoothing function.
3675 In addition, several functions typically used in smoothing of financial data
3677 (license license:gpl2)))
3679 (define-public r-riverplot
3681 (name "r-riverplot")
3686 (uri (cran-uri "riverplot" version))
3689 "0q1icpny8nkxyjhawyjzwrw8qlz0ayn2xyrsqrm4vkxyv6c9xk8z"))))
3690 (build-system r-build-system)
3691 (home-page "https://logfc.wordpress.com")
3692 (synopsis "Sankey or ribbon plots")
3694 "Sankey plots are a type of diagram that is convenient to illustrate how
3695 flow of information, resources etc. separates and joins, much like observing
3696 how rivers split and merge. For example, they can be used to compare
3697 different clusterings. This package provides an implementation of Sankey
3699 (license license:gpl2+)))
3701 (define-public r-dyn
3708 (uri (cran-uri "dyn" version))
3711 "16fqv9k7yxdgybwzafjkyqm16qpgqz13lcjpi6a1nc8xbzlzh0gb"))))
3712 (build-system r-build-system)
3714 `(("r-zoo" ,r-zoo)))
3715 (home-page "https://cran.r-project.org/web/packages/dyn")
3716 (synopsis "Time series regression")
3718 "This package provides the dyn class interfaces @code{ts}, @code{irts},
3719 @code{zoo} and @code{zooreg} time series classes to @code{lm}, @code{glm},
3720 @code{loess}, @code{quantreg::rq}, @code{MASS::rlm},
3721 @code{MCMCpack::MCMCregress()}, @code{quantreg::rq()},
3722 @code{randomForest::randomForest()} and other regression functions, allowing
3723 those functions to be used with time series including specifications that may
3724 contain lags, diffs and missing values.")
3726 (license license:gpl2+)))
3728 (define-public r-catdap
3735 (uri (cran-uri "catdap" version))
3738 "0i877l61f6c75pczi235rzci67w29zv1d7z5zn5p5ymndclvlpl2"))))
3739 (build-system r-build-system)
3741 `(("gfortran" ,gfortran)))
3742 (home-page "https://cran.r-project.org/web/packages/catdap/")
3743 (synopsis "Tools for categorical data analysis")
3745 "This package provides functions for analyzing multivariate data.
3746 Dependencies of the distribution of the specified variable (response
3747 variable) to other variables (explanatory variables) are derived and
3748 evaluated by the @dfn{Akaike Information Criterion} (AIC).")
3749 (license license:gpl2+)))
3751 (define-public r-arules
3758 (uri (cran-uri "arules" version))
3761 "0glfqgxr87900kigmkby2ff7qrjvd6aq595q85y056i5ckjcp615"))))
3762 (build-system r-build-system)
3764 `(("r-matrix" ,r-matrix)))
3765 (home-page "https://github.com/mhahsler/arules")
3766 (synopsis "Mining association rules and frequent itemsets")
3768 "This package provides an infrastructure for representing, manipulating
3769 and analyzing transaction data and patterns (frequent itemsets and association rules).
3770 It also provides C implementations of the association mining algorithms Apriori
3772 (license license:gpl3)))
3774 (define-public r-parsedate
3776 (name "r-parsedate")
3781 (uri (cran-uri "parsedate" version))
3784 "0mg7hbm3903iwvmpn51gjpaaq03rsp72hjb1g8h5g84r81iha002"))))
3785 (build-system r-build-system)
3786 (home-page "https://github.com/gaborcsardi/parsedate")
3788 "Recognize and parse dates in various formats")
3790 "This package provides three functions for dealing with dates:
3791 @code{parse_iso_8601} recognizes and parses all valid ISO 8601 date and
3792 time formats, @code{parse_date} parses dates in unspecified formats,
3793 and @code{format_iso_8601} formats a date in ISO 8601 format.")
3794 (license license:gpl2)))
3796 (define-public r-abc-data
3803 (uri (cran-uri "abc.data" version))
3806 "1bv1n68ah714ws58cf285n2s2v5vn7382lfjca4jxph57lyg8hmj"))))
3807 (properties `((upstream-name . "abc.data")))
3808 (build-system r-build-system)
3809 (home-page "https://cran.r-project.org/web/packages/abc.data/")
3810 (synopsis "Data for Approximate Bayesian Computation (ABC) package")
3812 "This package contains data which are used by functions of the abc
3813 package which implements several @dfn{Approximate Bayesian Computation} (ABC)
3814 algorithms for performing parameter estimation, model selection, and
3816 (license license:gpl3+)))
3818 (define-public r-abc
3825 (uri (cran-uri "abc" version))
3828 "0ngzaaz2y2s03fhngvwipmy4kq38xrmyddaz6a6l858rxvadrlhb"))))
3829 (build-system r-build-system)
3831 `(("r-abc-data" ,r-abc-data)
3832 ("r-locfit" ,r-locfit)
3835 ("r-quantreg" ,r-quantreg)))
3836 (home-page "https://cran.r-project.org/web/packages/abc/")
3837 (synopsis "Tools for Approximate Bayesian Computation (ABC)")
3839 "This package implements several @dfn{Approximate Bayesian
3840 Computation} (ABC) algorithms for performing parameter estimation, model
3841 selection, and goodness-of-fit. Cross-validation tools are also available for
3842 measuring the accuracy of ABC estimates, and to calculate the
3843 misclassification probabilities of different models.")
3844 (license license:gpl3+)))
3846 (define-public r-zip
3853 (uri (cran-uri "zip" version))
3856 "0rgr9pcdhdq3k8n29h2ircp3ri1ibhrx81gja1y7331v15xyrabg"))))
3857 (build-system r-build-system)
3858 (home-page "https://github.com/gaborcsardi/zip")
3859 (synopsis "Cross-platform Zip compression")
3861 "This package provides a cross-platform Zip compression library for R.
3862 It is a replacement for the @code{zip} function, that does not require any
3863 additional external tools on any platform.")
3864 (license license:cc0)))
3866 (define-public r-openxlsx
3873 (uri (cran-uri "openxlsx" version))
3876 "1n7z22pm78xa77fvn77kdn68az6xzxk36y11sqf0w6h6adri4yxb"))))
3877 (build-system r-build-system)
3879 `(("r-rcpp" ,r-rcpp)
3881 (home-page "https://github.com/awalker89/openxlsx")
3882 (synopsis "Read, write and edit XLSX files")
3884 "This package simplifies the creation of Excel @code{.xlsx} files by
3885 providing a high level interface to writing, styling and editing worksheets.
3886 Through the use of Rcpp, read/write times are comparable to the @code{xlsx}
3887 and @code{XLConnect} packages with the added benefit of removing the
3888 dependency on Java.")
3889 (license license:gpl3)))
3891 (define-public r-rio
3898 (uri (cran-uri "rio" version))
3901 "158xg3vj0glk3fslwi6fywwmfym2b6kn3fdmjligdfy5lf68khix"))))
3902 (build-system r-build-system)
3904 `(("r-curl" ,r-curl)
3905 ("r-data-table" ,r-data-table)
3906 ("r-foreign" ,r-foreign)
3907 ("r-haven" ,r-haven)
3908 ("r-openxlsx" ,r-openxlsx)
3909 ("r-readxl" ,r-readxl)
3910 ("r-tibble" ,r-tibble)))
3911 (home-page "https://github.com/leeper/rio")
3912 (synopsis "Swiss-army knife for data I/O")
3914 "This package provides streamlined data import and export infrastructure
3915 by making assumptions that the user is probably willing to make: @code{import}
3916 and @code{export} determine the data structure from the file extension,
3917 reasonable defaults are used for data import and export (e.g.,
3918 @code{stringsAsFactors=FALSE}), web-based import is natively
3919 supported (including from SSL/HTTPS), compressed files can be read directly
3920 without explicit decompression, and fast import packages are used where
3921 appropriate. An additional convenience function, @code{convert}, provides a
3922 simple method for converting between file types.")
3923 (license license:gpl2)))
3925 (define-public r-maptools
3932 (uri (cran-uri "maptools" version))
3935 "075lmb3b62171cw2dg8fv1vwmvfzg39r1ji7jwb8s5k9dz88ry1v"))))
3936 (build-system r-build-system)
3938 `(("r-foreign" ,r-foreign)
3939 ("r-lattice" ,r-lattice)
3941 (home-page "http://r-forge.r-project.org/projects/maptools/")
3942 (synopsis "Tools for reading and handling spatial objects")
3944 "This package provides a set of tools for manipulating and reading
3945 geographic data, in particular ESRI Shapefiles. It includes binary access to
3946 GSHHG shoreline files. The package also provides interface wrappers for
3947 exchanging spatial objects with other R packages.")
3948 ;; The C source files from shapelib are released under the Expat license.
3949 ;; The R code is released under GPL version 2 or later.
3950 (license (list license:gpl2+
3953 (define-public r-later
3960 (uri (cran-uri "later" version))
3963 "04j2phymxgkk4hv9pfa5w3s98w5d7fvm11blrdhxmray4n618msw"))))
3964 (build-system r-build-system)
3968 ("r-rlang" ,r-rlang)))
3969 (home-page "https://github.com/r-lib/later")
3970 (synopsis "Utilities for delaying function execution")
3972 "This package provides tools to execute arbitrary R or C functions some
3973 time after the current time, after the R execution stack has emptied.")
3974 (license license:gpl2+)))
3976 (define-public r-promises
3983 (uri (cran-uri "promises" version))
3986 "0n2mlv6bvfb4yhgcml696l9vkbw21pz0smqylivr606z99rwgny2"))))
3987 (build-system r-build-system)
3989 `(("r-later" ,r-later)
3990 ("r-magrittr" ,r-magrittr)
3993 ("r-rlang" ,r-rlang)))
3994 (home-page "https://rstudio.github.io/promises")
3995 (synopsis "Abstractions for promise-based asynchronous programming")
3997 "This package provides fundamental abstractions for doing asynchronous
3998 programming in R using promises. Asynchronous programming is useful for
3999 allowing a single R process to orchestrate multiple tasks in the background
4000 while also attending to something else. Semantics are similar to JavaScript
4001 promises, but with a syntax that is idiomatic R.")
4002 (license license:expat)))
4004 (define-public r-dosnow
4011 (uri (cran-uri "doSNOW" version))
4014 "13ir4a8252h4yvp5ir9xnwack1kn58i4ny6sf2qdc12zspn3850n"))))
4015 (properties `((upstream-name . "doSNOW")))
4016 (build-system r-build-system)
4018 `(("r-foreach" ,r-foreach)
4019 ("r-iterators" ,r-iterators)
4020 ("r-snow" ,r-snow)))
4021 (home-page "https://cran.r-project.org/web/packages/doSNOW")
4022 (synopsis "Foreach parallel adaptor for the snow package")
4024 "This package provides a parallel backend for the @code{%dopar%} function
4025 using the @code{snow} package.")
4026 (license license:gpl2)))
4028 (define-public r-snowfall
4031 (version "1.84-6.1")
4034 (uri (cran-uri "snowfall" version))
4036 (base32 "13941rlw1jsdjsndp1plzj1cq5aqravizkrqn6l25r9im7rnsi2w"))))
4037 (build-system r-build-system)
4039 `(("r-snow" ,r-snow)))
4040 (home-page "http://cran.r-project.org/web/packages/snowfall/")
4041 (synopsis "Easier cluster computing")
4042 (description "This package is a usability wrapper around snow for easier
4043 development of parallel R programs. This package offers e.g. extended error
4044 checks, and additional functions. All functions work in sequential mode, too,
4045 if no cluster is present or wished. The package is also designed as connector
4046 to the cluster management tool @code{sfCluster}, but can also used without
4048 (license license:gpl2+)))
4050 (define-public r-codedepends
4052 (name "r-codedepends")
4057 (uri (cran-uri "CodeDepends" version))
4060 "03p82s0abca2jimzqvxdzykfzca7c7fhm5xsjxybcksr4gggr5sc"))))
4061 (properties `((upstream-name . "CodeDepends")))
4062 (build-system r-build-system)
4064 `(("r-codetools" ,r-codetools)
4066 (home-page "http://cran.r-project.org/web/packages/CodeDepends")
4067 (synopsis "Analysis of R code for reproducible research and code comprehension")
4069 "This package provides tools for analyzing R expressions or blocks of
4070 code and determining the dependencies between them. It focuses on R scripts,
4071 but can be used on the bodies of functions. There are many facilities
4072 including the ability to summarize or get a high-level view of code,
4073 determining dependencies between variables, code improvement suggestions.")
4074 ;; Any version of the GPL
4075 (license (list license:gpl2+ license:gpl3+))))
4077 (define-public r-rappdirs
4084 (uri (cran-uri "rappdirs" version))
4087 "0ji6sg3bdn5gazkq14xmmcq7jnbsyxw4lzmmbgv6526j2vn93n1g"))))
4088 (build-system r-build-system)
4089 (home-page "https://cran.r-project.org/web/packages/rappdirs/")
4090 (synopsis "Determine where to save data, caches, and logs")
4092 "This package provides an easy way to determine which directories on the
4093 user's computer should be used to save data, caches and logs. It is a port of
4094 Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.")
4095 (license license:expat)))
4097 (define-public r-learnr
4104 (uri (cran-uri "learnr" version))
4107 "0jbk0g6fkw7zs8ykzhsvh9vvz8xmc4v03bqzjsa5mmpxpqan5vx5"))))
4108 (build-system r-build-system)
4110 `(("r-evaluate" ,r-evaluate)
4111 ("r-htmltools" ,r-htmltools)
4112 ("r-htmlwidgets" ,r-htmlwidgets)
4113 ("r-jsonlite" ,r-jsonlite)
4114 ("r-knitr" ,r-knitr)
4115 ("r-markdown" ,r-markdown)
4116 ("r-rappdirs" ,r-rappdirs)
4117 ("r-rmarkdown" ,r-rmarkdown)
4118 ("r-rprojroot" ,r-rprojroot)
4119 ("r-shiny" ,r-shiny)
4120 ("r-withr" ,r-withr)))
4121 (home-page "https://rstudio.github.io/learnr/")
4122 (synopsis "Interactive tutorials for R")
4124 "This package provides tools to create interactive tutorials using R
4125 Markdown. Use a combination of narrative, figures, videos, exercises, and
4126 quizzes to create self-paced tutorials for learning about R and R packages.")
4127 (license license:asl2.0)))
4129 (define-public r-analytics
4131 (name "r-analytics")
4136 (uri (cran-uri "analytics" version))
4139 "1jkdjqc3fnvvsgi6x9ncf36rxzq0a55cmgkcv92mfmpcramg2lk6"))))
4140 (build-system r-build-system)
4143 ("r-cluster" ,r-cluster)
4144 ("r-fractal" ,r-fractal)
4145 ("r-lmtest" ,r-lmtest)
4148 ("r-powerplus" ,r-powerplus)
4149 ("r-robust" ,r-robust)
4150 ("r-trend" ,r-trend)
4152 ("r-urca" ,r-urca)))
4153 (home-page "https://cran.r-project.org/web/packages/analytics/")
4154 (synopsis "Collection of data analysis tools")
4156 "This package is a collection of data analysis tools. It includes tools
4157 for regression outlier detection in a fitted linear model, stationary
4158 bootstrap using a truncated geometric distribution, a comprehensive test for
4159 weak stationarity, column means by group, weighted biplots, and a heuristic to
4160 obtain a better initial configuration in non-metric MDS.")
4161 (license license:gpl2)))
4163 (define-public r-reticulate
4165 (name "r-reticulate")
4170 (uri (cran-uri "reticulate" version))
4173 "0zwb4ikf021nw7axdn7qlr6bq4xkph3anfy314idkspy1iil4nmr"))))
4174 (build-system r-build-system)
4175 (inputs `(("python" ,python)))
4177 `(("r-jsonlite" ,r-jsonlite)
4178 ("r-matrix" ,r-matrix)
4179 ("r-rcpp" ,r-rcpp)))
4180 (home-page "https://github.com/rstudio/reticulate")
4181 (synopsis "R interface to Python")
4183 "This package provides an interface from R to Python modules, classes,
4184 and functions. When calling into Python, R data types are automatically
4185 converted to their equivalent Python types. When values are returned from
4186 Python to R they are converted back to R types.")
4187 (license license:asl2.0)))
4189 (define-public r-bibtex
4196 (uri (cran-uri "bibtex" version))
4199 "0wl3925ryd54g1nv3ncwllc493d39dpgy5md61940h69c0van1hz"))))
4200 (build-system r-build-system)
4201 (propagated-inputs `(("r-stringr" ,r-stringr)))
4202 (home-page "https://github.com/romainfrancois/bibtex")
4203 (synopsis "Bibtex parser")
4204 (description "This package provides a utility for R to parse a bibtex
4206 (license license:gpl2+)))
4208 (define-public r-ggseqlogo
4210 (name "r-ggseqlogo")
4215 (uri (cran-uri "ggseqlogo" version))
4218 "13q6kcpxrqxqbji889fx63p0nsi08lk5yymkchig75r5k1d18ky1"))))
4219 (build-system r-build-system)
4220 (propagated-inputs `(("r-ggplot2" ,r-ggplot2)))
4221 (home-page "https://github.com/omarwagih/ggseqlogo")
4222 (synopsis "ggplot2 extension for drawing genetic sequence logos")
4224 "The range of functions provided by this package makes it possible to
4225 draw highly versatile genomic sequence logos. Features include, but are not
4226 limited to, modifying colour schemes and fonts used to draw the logo,
4227 generating multiple logo plots, and aiding the visualisation with annotations.
4228 Sequence logos can easily be combined with other ggplot2 plots.")
4229 ;; Unspecified version of the LGPL.
4230 (license license:lgpl3+)))
4232 (define-public r-ggsci
4239 (uri (cran-uri "ggsci" version))
4242 "0g73x6grbka7ahjh6z23m3wrcifp5rdfdiasbl8lq4sp6rplxwaa"))))
4243 (build-system r-build-system)
4245 `(("r-ggplot2" ,r-ggplot2)
4246 ("r-scales" ,r-scales)))
4247 (home-page "https://nanx.me/ggsci/")
4248 (synopsis "Scientific journal and sci-fi themed color palettes for ggplot2")
4250 "This package provides a collection of ggplot2 color palettes inspired by
4251 plots in scientific journals, data visualization libraries, science fiction
4252 movies, and TV shows.")
4253 (license license:gpl3)))
4255 (define-public r-ggsignif
4262 (uri (cran-uri "ggsignif" version))
4265 "1rn58d7pb3axk6chiihryykrzw76adaa2yiafq4d0j6qbhax78f7"))))
4266 (build-system r-build-system)
4268 `(("r-ggplot2" ,r-ggplot2)))
4269 (home-page "https://github.com/const-ae/ggsignif")
4270 (synopsis "Significance brackets for ggplot2")
4272 "Enrich your ggplots with group-wise comparisons. This package provides
4273 an easy way to indicate if two groups are significantly different. Commonly
4274 this is shown by a bracket on top connecting the groups of interest which
4275 itself is annotated with the level of significance. The package provides a
4276 single layer that takes the groups for comparison and the test as arguments
4277 and adds the annotation to the plot.")
4278 (license license:gpl3)))
4280 (define-public r-ggpubr
4287 (uri (cran-uri "ggpubr" version))
4290 "110ny8p41kmbz0a5rl0mv9cqpjkx6yr3ybflp1r0fmcvhwv7cr3i"))))
4291 (build-system r-build-system)
4293 `(("r-cowplot" ,r-cowplot)
4294 ("r-dplyr" ,r-dplyr)
4295 ("r-ggplot2" ,r-ggplot2)
4296 ("r-ggrepel" ,r-ggrepel)
4297 ("r-ggsci" ,r-ggsci)
4298 ("r-ggsignif" ,r-ggsignif)
4299 ("r-gridextra" ,r-gridextra)
4300 ("r-magrittr" ,r-magrittr)
4301 ("r-purrr" ,r-purrr)
4302 ("r-scales" ,r-scales)
4303 ("r-tidyr" ,r-tidyr)))
4304 (home-page "http://www.sthda.com/english/rpkgs/ggpubr")
4305 (synopsis "ggplot2-based publication-ready plots")
4307 "The ggplot2 package is an excellent and flexible package for elegant
4308 data visualization in R. However the default generated plots require some
4309 formatting before we can send them for publication. The ggpubr package
4310 provides some easy-to-use functions for creating and customizing ggplot2-based
4311 publication-ready plots.")
4312 (license license:gpl2)))
4314 (define-public r-ellipse
4321 (uri (cran-uri "ellipse" version))
4324 "0g82vc51m3c1k0hnpp2zla6amxxgk2mmkl8ssnsc49jv3599r6hs"))))
4325 (build-system r-build-system)
4326 (home-page "https://cran.r-project.org/web/packages/ellipse/")
4327 (synopsis "Functions for drawing ellipses and ellipse-like confidence regions")
4329 "This package contains various routines for drawing ellipses and
4330 ellipse-like confidence regions, implementing the plots described in Murdoch
4331 and Chow (1996), A graphical display of large correlation matrices, The
4332 American Statistician 50, 178-180. There are also routines implementing the
4333 profile plots described in Bates and Watts (1988), Nonlinear Regression
4334 Analysis and its Applications.")
4335 (license license:gpl2+)))
4337 (define-public r-flashclust
4339 (name "r-flashclust")
4344 (uri (cran-uri "flashClust" version))
4347 "0l4lpz451ll7f7lfxmb7ds24ppzhfg1c3ypvydglcc35p2dq99s8"))))
4348 (properties `((upstream-name . "flashClust")))
4349 (build-system r-build-system)
4350 (native-inputs `(("gfortran" ,gfortran)))
4351 (home-page "https://cran.r-project.org/web/packages/flashClust/")
4352 (synopsis "Implementation of optimal hierarchical clustering")
4354 "This package provides a fast implementation of hierarchical
4356 (license license:gpl2+)))
4358 (define-public r-factominer
4360 (name "r-factominer")
4365 (uri (cran-uri "FactoMineR" version))
4368 "1h20hydav6l2b7bngqw1av4l5rrh0wk58nhailga1f4qw9lrv259"))))
4369 (properties `((upstream-name . "FactoMineR")))
4370 (build-system r-build-system)
4373 ("r-cluster" ,r-cluster)
4374 ("r-ellipse" ,r-ellipse)
4375 ("r-flashclust" ,r-flashclust)
4376 ("r-lattice" ,r-lattice)
4377 ("r-leaps" ,r-leaps)
4379 ("r-scatterplot3d" ,r-scatterplot3d)))
4380 (home-page "http://factominer.free.fr")
4381 (synopsis "Multivariate exploratory data analysis and data mining")
4383 "This package provides exploratory data analysis methods to summarize,
4384 visualize and describe datasets. The main principal component methods are
4385 available, those with the largest potential in terms of applications:
4386 principal component analysis (PCA) when variables are quantitative,
4387 correspondence analysis (CA) and multiple correspondence analysis (MCA) when
4388 variables are categorical, Multiple Factor Analysis when variables are
4389 structured in groups, etc. and hierarchical cluster analysis.")
4390 (license license:gpl2+)))
4392 (define-public r-factoextra
4394 (name "r-factoextra")
4399 (uri (cran-uri "factoextra" version))
4402 "1l6m8k7qhdw8ndar8nhmym0lfyd1i2iszl1cicjax0vq23ss6xw1"))))
4403 (build-system r-build-system)
4405 `(("r-abind" ,r-abind)
4406 ("r-cluster" ,r-cluster)
4407 ("r-dendextend" ,r-dendextend)
4408 ("r-factominer" ,r-factominer)
4409 ("r-ggplot2" ,r-ggplot2)
4410 ("r-ggpubr" ,r-ggpubr)
4411 ("r-ggrepel" ,r-ggrepel)
4412 ("r-reshape2" ,r-reshape2)
4413 ("r-tidyr" ,r-tidyr)))
4414 (home-page "http://www.sthda.com/english/rpkgs/factoextra")
4415 (synopsis "Extract and visualize the results of multivariate data analyses")
4417 "This package provides some easy-to-use functions to extract and
4418 visualize the output of multivariate data analyses, including
4419 @code{PCA} (Principal Component Analysis), @code{CA} (Correspondence
4420 Analysis), @code{MCA} (Multiple Correspondence Analysis), @code{FAMD} (Factor
4421 Analysis of Mixed Data), @code{MFA} (Multiple Factor Analysis) and
4422 @code{HMFA} (Hierarchical Multiple Factor Analysis) functions from different R
4423 packages. It contains also functions for simplifying some clustering analysis
4424 steps and provides ggplot2-based elegant data visualization.")
4425 (license license:gpl2)))
4427 (define-public r-nbclust
4434 (uri (cran-uri "NbClust" version))
4437 "1vwb48zy6ln1ddpqmfngii1i80n8qmqyxnzdp6gbaq96lakl3w3c"))))
4438 (properties `((upstream-name . "NbClust")))
4439 (build-system r-build-system)
4440 (home-page "https://sites.google.com/site/malikacharrad/research/nbclust-package")
4441 (synopsis "Determine the best number of clusters in a data set")
4443 "NbClust provides 30 indexes for determining the optimal number of
4444 clusters in a data set and offers the best clustering scheme from different
4445 results to the user.")
4446 (license license:gpl2)))
4448 (define-public r-hdf5r
4455 (uri (cran-uri "hdf5r" version))
4458 "1s6p4cj909kc635fh5xpl87bqlcdj3dn3r1wk5g40abimk2b0pva"))))
4459 (build-system r-build-system)
4464 `(("r-bit64" ,r-bit64)
4466 (home-page "https://hhoeflin.github.io/hdf5r")
4467 (synopsis "Interface to the HDF5 binary data format")
4469 "HDF5 is a data model, library and file format for storing and managing
4470 large amounts of data. This package provides a nearly feature complete,
4471 object oriented wrapper for the HDF5 API using R6 classes. Additionally,
4472 functionality is added so that HDF5 objects behave very similar to their
4473 corresponding R counterparts.")
4474 (license license:asl2.0)))
4476 (define-public r-itertools
4478 (name "r-itertools")
4483 (uri (cran-uri "itertools" version))
4486 "1ls5biiva10pb1dj3ph4griykb9vam02hkrdmlr5a5wf660hg6xn"))))
4487 (build-system r-build-system)
4489 `(("r-iterators" ,r-iterators)))
4490 (home-page "https://cran.r-project.org/web/packages/itertools/")
4491 (synopsis "Iterator tools")
4493 "This package provides various tools for creating iterators, many
4494 patterned after functions in the Python @code{itertools} module, and others
4495 patterned after functions in the snow package.")
4496 (license license:gpl2)))
4498 (define-public r-writexl
4505 (uri (cran-uri "writexl" version))
4508 "0r2v12dc4zqmr1agp6vbw0fc48i278018684x84psjjqfmnv14cf"))))
4509 (build-system r-build-system)
4510 (inputs `(("zlib" ,zlib)))
4511 (home-page "https://github.com/ropensci/writexl")
4512 (synopsis "Export data frames to xlsx format")
4514 "This package provides a data frame to xlsx exporter based on
4516 (license license:bsd-2)))
4518 (define-public r-biasedurn
4520 (name "r-biasedurn")
4525 (uri (cran-uri "BiasedUrn" version))
4528 "13i2lgfnjhlbbm2yxfc2l5hswqw6x03pwba5csjmirv8kpjw4xr3"))))
4529 (properties `((upstream-name . "BiasedUrn")))
4530 (build-system r-build-system)
4531 (home-page "https://cran.r-project.org/web/packages/BiasedUrn/")
4532 (synopsis "Biased Urn model distributions")
4534 "This package provides statistical models of biased sampling in the form
4535 of univariate and multivariate noncentral hypergeometric distributions,
4536 including Wallenius' noncentral hypergeometric distribution and Fisher's
4537 noncentral hypergeometric distribution (also called extended hypergeometric
4539 (license license:gpl3)))
4541 (define-public r-goplot
4548 (uri (cran-uri "GOplot" version))
4551 "1y8dv0kbzpr9za91njw0x233vx5d13vqml9hmpddcyi9s6va5nix"))))
4552 (properties `((upstream-name . "GOplot")))
4553 (build-system r-build-system)
4555 `(("r-ggdendro" ,r-ggdendro)
4556 ("r-ggplot2" ,r-ggplot2)
4557 ("r-gridextra" ,r-gridextra)
4558 ("r-rcolorbrewer" ,r-rcolorbrewer)))
4559 (home-page "https://github.com/wencke/wencke.github.io")
4560 (synopsis "Visualization of functional analysis data")
4562 "This package provides an implementation of multilayered visualizations
4563 for enhanced graphical representation of functional analysis data. It
4564 combines and integrates omics data derived from expression and functional
4565 annotation enrichment analyses. Its plotting functions have been developed
4566 with an hierarchical structure in mind: starting from a general overview to
4567 identify the most enriched categories (modified bar plot, bubble plot) to a
4568 more detailed one displaying different types of relevant information for the
4569 molecules in a given set of categories (circle plot, chord plot, cluster plot,
4570 Venn diagram, heatmap).")
4571 (license license:gpl2)))
4573 (define-public r-getopt
4580 (uri (cran-uri "getopt" version))
4583 "13p35lbpy7i578752fa71sbfvcsqw5qfa9p6kf8b5m3c5p9i4v1x"))))
4584 (build-system r-build-system)
4585 (home-page "https://github.com/trevorld/getopt")
4586 (synopsis "Command-line option processor for R")
4588 "This package is designed to be used with Rscript to write shebang
4589 scripts that accept short and long options. Many users will prefer to
4590 use the packages @code{optparse} or @code{argparse} which add extra
4591 features like automatically generated help options and usage texts,
4592 support for default values, positional argument support, etc.")
4593 (license license:gpl2+)))
4595 (define-public r-findpython
4597 (name "r-findpython")
4602 (uri (cran-uri "findpython" version))
4605 "1y08jk2ffmkf9zpwiz2xymjhfwqvls9vzsnq62v278ghw9d571jl"))))
4606 (build-system r-build-system)
4607 (home-page "https://github.com/trevorld/findpython")
4608 (synopsis "Functions to find an acceptable Python binary")
4610 "This package was designed to find an acceptable Python binary that
4611 matches version and feature constraints.")
4612 (license license:expat)))
4614 ;; This in not the same as "r-argparser"
4615 (define-public r-argparse
4622 (uri (cran-uri "argparse" version))
4625 "0fzrbj87b274vf96azdnsjxk2nf45d5wy58vzmlah4b4h7q4j524"))))
4626 (build-system r-build-system)
4627 (inputs `(("python" ,python)))
4629 `(("r-findpython" ,r-findpython)
4630 ("r-getopt" ,r-getopt)
4631 ("r-jsonlite" ,r-jsonlite)
4632 ("r-proto" ,r-proto)))
4633 (home-page "https://github.com/trevorld/argparse")
4634 (synopsis "Command line optional and positional argument parser")
4636 "This package provides a command line parser to be used with Rscript to
4637 write shebang scripts that gracefully accept positional and optional arguments
4638 and automatically generate usage notices.")
4639 (license license:gpl2+)))
4641 (define-public r-hash
4648 (uri (cran-uri "hash" version))
4651 "0mkx59bmni3b283znvbndnkbar85fzavzdfgmwrhskidsqcz34yz"))))
4652 (build-system r-build-system)
4653 (home-page "https://cran.r-project.org/web/packages/hash/")
4654 (synopsis "Implementation of hash/associated arrays/dictionaries")
4656 "This package implements a data structure similar to hashes in Perl and
4657 dictionaries in Python but with a purposefully R flavor. For objects of
4658 appreciable size, access using hashes outperforms native named lists and
4660 (license license:gpl2+)))
4662 (define-public r-orddom
4669 (uri (cran-uri "orddom" version))
4672 "165axs15fvwhrp89xd87l81q3h2qjll1vrwcsap645cwvb85nwsh"))))
4673 (build-system r-build-system)
4674 (propagated-inputs `(("r-psych" ,r-psych)))
4675 (home-page "https://cran.r-project.org/web/packages/orddom/")
4676 (synopsis "Ordinal dominance statistics")
4678 "This package provides tools to compute ordinal, statistics and effect
4679 sizes as an alternative to mean comparison: Cliff's delta or success rate
4680 difference (SRD), Vargha and Delaney's A or the Area Under a Receiver
4681 Operating Characteristic Curve (AUC), the discrete type of McGraw & Wong's
4682 Common Language Effect Size (CLES) or Grissom & Kim's Probability of
4683 Superiority (PS), and the Number needed to treat (NNT) effect size. Moreover,
4684 comparisons to Cohen's d are offered based on Huberty & Lowman's Percentage of
4685 Group (Non-)Overlap considerations.")
4686 (license license:gpl2)))
4688 (define-public r-doby
4695 (uri (cran-uri "doBy" version))
4698 "1y02awzid23bxz8hx6j8pxd6i7jaq8pdw3k60rag8y6m69incrw5"))))
4699 (properties `((upstream-name . "doBy")))
4700 (build-system r-build-system)
4702 `(("r-dplyr" ,r-dplyr)
4703 ("r-magrittr" ,r-magrittr)
4705 ("r-matrix" ,r-matrix)
4706 ("r-plyr" ,r-plyr)))
4707 (home-page "http://people.math.aau.dk/~sorenh/software/doBy/")
4708 (synopsis "Groupwise statistics, LSmeans, linear contrasts, and utilities")
4710 "This package contains:
4713 @item facilities for working with grouped data: @code{do}
4714 something to data stratified @code{by} some variables.
4715 @item implementations of least-squares means, general linear contrasts, and
4716 @item miscellaneous other utilities.
4718 (license license:gpl2+)))
4720 (define-public r-refgenome
4722 (name "r-refgenome")
4727 (uri (cran-uri "refGenome" version))
4730 "15p0ra2p1pwhy5ixbhsz1g79c5sc2aap4i4c8kil0m2syg9y45sn"))))
4731 (properties `((upstream-name . "refGenome")))
4732 (build-system r-build-system)
4736 ("r-rsqlite" ,r-rsqlite)))
4737 (home-page "https://cran.r-project.org/web/packages/refGenome/")
4739 "Gene and splice site annotation using annotation data from Ensembl and UCSC")
4741 "This package contains functionality for importing and managing of
4742 downloaded genome annotation data from the Ensembl genome browser (European
4743 Bioinformatics Institute) and from the UCSC genome browser (University of
4744 California, Santa Cruz) and annotation routines for genomic positions and
4745 splice site positions.")
4746 (license license:gpl2)))
4748 (define-public r-basix
4755 (uri (cran-uri "BASIX" version))
4758 "18dkvv1iwskfnlpl6xridcgqpalbbpm2616mvc3hfrc0b26v01id"))))
4759 (properties `((upstream-name . "BASIX")))
4760 (build-system r-build-system)
4761 (home-page "https://cran.r-project.org/web/packages/BASIX/")
4762 (synopsis "Efficient C/C++ toolset for R")
4764 "BASIX provides some efficient C/C++ implementations of native R
4765 procedures to speed up calculations in R.")
4766 (license license:gpl2)))
4768 (define-public r-blockfest
4770 (name "r-blockfest")
4775 (uri (cran-uri "BlockFeST" version))
4778 "0hj7a5as7nxbgjac7lbj6qfwffx3g8x8phpf9a55f1c9cdzi73a5"))))
4779 (properties `((upstream-name . "BlockFeST")))
4780 (build-system r-build-system)
4781 (propagated-inputs `(("r-basix" ,r-basix)))
4782 (home-page "https://cran.r-project.org/web/packages/BlockFeST/")
4783 (synopsis "Bayesian calculation of region-specific fixation index")
4785 "This package provides an R implementation of an extension of the
4786 BayeScan software for codominant markers, adding the option to group
4787 individual SNPs into pre-defined blocks. A typical application of this new
4788 approach is the identification of genomic regions, genes, or gene sets
4789 containing one or more SNPs that evolved under directional selection.")
4790 (license license:gpl2)))
4792 (define-public r-proc
4799 (uri (cran-uri "pROC" version))
4802 "05ad69a6fxy9k903cw3h4q59ch2jv6qfg9yjdbw3cgiiazcafrlj"))))
4803 (properties `((upstream-name . "pROC")))
4804 (build-system r-build-system)
4806 `(("r-ggplot2" ,r-ggplot2)
4808 ("r-rcpp" ,r-rcpp)))
4809 (home-page "http://expasy.org/tools/pROC/")
4810 (synopsis "Display and analyze ROC curves")
4812 "This package provides tools for visualizing, smoothing and comparing
4813 receiver operating characteristic (ROC curves). The area under the
4814 curve (AUC) can be compared with statistical tests based on U-statistics or
4815 bootstrap. Confidence intervals can be computed for (p)AUC or ROC curves.")
4816 (license license:gpl3+)))
4818 (define-public r-rootsolve
4820 (name "r-rootsolve")
4825 (uri (cran-uri "rootSolve" version))
4828 "08ic6ggcc5dw4nv9xsqkm3vnvswmxyhnqnv1rdjv1h2gy1ivpcq8"))))
4829 (properties `((upstream-name . "rootSolve")))
4830 (build-system r-build-system)
4831 (native-inputs `(("gfortran" ,gfortran)))
4832 (home-page "https://cran.r-project.org/web/packages/rootSolve/")
4833 (synopsis "Tools for the analysis of ordinary differential equations")
4835 "This package provides routines to find the root of nonlinear functions,
4836 and to perform steady-state and equilibrium analysis of @dfn{ordinary
4837 differential equations} (ODE). It includes routines that:
4840 @item generate gradient and jacobian matrices (full and banded),
4841 @item find roots of non-linear equations by the Newton-Raphson method,
4842 @item estimate steady-state conditions of a system of (differential) equations
4843 in full, banded or sparse form, using the Newton-Raphson method, or by
4844 dynamically running,
4845 @item solve the steady-state conditions for uni- and multicomponent 1-D, 2-D,
4846 and 3-D partial differential equations, that have been converted to ordinary
4847 differential equations by numerical differencing (using the method-of-lines
4850 (license license:gpl2+)))
4852 (define-public r-abcanalysis
4854 (name "r-abcanalysis")
4859 (uri (cran-uri "ABCanalysis" version))
4861 (base32 "0wac1ksmnxa36v99ca4hv8k0rsh3igwpcllmlv9wf7i9kgqviqwi"))))
4862 (properties `((upstream-name . "ABCanalysis")))
4863 (build-system r-build-system)
4864 (propagated-inputs `(("r-plotrix" ,r-plotrix)))
4865 (home-page "https://www.uni-marburg.de/fb12/arbeitsgruppen/datenbionik/software-en/")
4866 (synopsis "Computed ABC Analysis")
4868 "Multivariate data sets often differ in several factors or derived statistical
4869 parameters, which have to be selected for a valid interpretation. Basing this
4870 selection on traditional statistical limits leads occasionally to the perception
4871 of losing information from a data set. This package provides tools to calculate
4872 these limits on the basis of the mathematical properties of the distribution of
4873 the analyzed items.")
4874 (license license:gpl3)))
4876 (define-public r-slam
4883 (uri (cran-uri "slam" version))
4885 (base32 "0hy4qzngcgafxxr6ld7n9a9wy979ji998gpcc32vidwyab66dj5h"))))
4886 (build-system r-build-system)
4887 (home-page "https://cran.r-project.org/web/packages/slam/")
4888 (synopsis "Sparse lightweight arrays and matrices")
4890 "This package contains data structures and algorithms for sparse arrays and matrices,
4891 based on index arrays and simple triplet representations, respectively.")
4892 (license license:gpl2)))
4894 (define-public r-manipulatewidget
4896 (name "r-manipulatewidget")
4901 (uri (cran-uri "manipulateWidget" version))
4903 (base32 "1zagrbwkn2d50zzw8i2vyb1hsq4cydmfsqiy1a2qlp6zrv8a6q9x"))))
4905 `((upstream-name . "manipulateWidget")))
4906 (build-system r-build-system)
4908 `(("r-base64enc" ,r-base64enc)
4909 ("r-codetools" ,r-codetools)
4910 ("r-htmltools" ,r-htmltools)
4911 ("r-htmlwidgets" ,r-htmlwidgets)
4912 ("r-knitr" ,r-knitr)
4913 ("r-miniui" ,r-miniui)
4914 ("r-shiny" ,r-shiny)
4915 ("r-webshot" ,r-webshot)))
4916 (home-page "https://github.com/rte-antares-rpackage/manipulateWidget/")
4917 (synopsis "Add even more interactivity to interactive charts")
4919 "This package lets you create in just a few lines of R code a nice user interface to
4920 modify the data or the graphical parameters of one or multiple interactive
4921 charts. It is useful to quickly explore visually some data or for package
4922 developers to generate user interfaces easy to maintain.")
4923 (license license:gpl2+)))