5567 lines
191 KiB
Scheme
5567 lines
191 KiB
Scheme
;;; GNU Guix --- Functional package management for GNU
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;;; Copyright © 2015, 2016, 2017, 2018 Ricardo Wurmus <rekado@elephly.net>
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;;; Copyright © 2017, 2018 Roel Janssen <roel@gnu.org>
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;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr>
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;;; Copyright © 2017 Raoul Bonnal <ilpuccio.febo@gmail.com>
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;;; Copyright © 2018 Vijayalakshmi Vedantham <vijimay12@gmail.com>
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;;; Copyright © 2018 Sahithi Yarlagadda <sahi@swecha.net>
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;;; Copyright © 2018 Sandeep Subramanian <sandeepsubramanian94@gmail.com>
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;;; Copyright © 2018 Charlie Ritter <chewzeirta@posteo.net>
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;;; Copyright © 2018 Konrad Hinsen <konrad.hinsen@fastmail.net>
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;;; Copyright © 2018 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
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;;;
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;;; This file is part of GNU Guix.
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;;;
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;;; GNU Guix is free software; you can redistribute it and/or modify it
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;;; under the terms of the GNU General Public License as published by
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;;; the Free Software Foundation; either version 3 of the License, or (at
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;;; your option) any later version.
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;;;
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;;; GNU Guix is distributed in the hope that it will be useful, but
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;;; WITHOUT ANY WARRANTY; without even the implied warranty of
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;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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;;; GNU General Public License for more details.
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;;;
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;;; You should have received a copy of the GNU General Public License
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;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
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(define-module (gnu packages cran)
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#:use-module ((guix licenses) #:prefix license:)
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#:use-module (guix packages)
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|
#:use-module (guix download)
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#:use-module (guix utils)
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#:use-module (guix build-system r)
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#:use-module (gnu packages compression)
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#:use-module (gnu packages gcc)
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#:use-module (gnu packages machine-learning)
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#:use-module (gnu packages maths)
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#:use-module (gnu packages mpi)
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#:use-module (gnu packages perl)
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#:use-module (gnu packages pkg-config)
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#:use-module (gnu packages python)
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#:use-module (gnu packages statistics)
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#:use-module (gnu packages tls)
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#:use-module (gnu packages web))
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|
|
|
(define-public r-clipr
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|
(package
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|
(name "r-clipr")
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|
(version "0.4.1")
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|
(source
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|
(origin
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|
(method url-fetch)
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|
(uri (cran-uri "clipr" version))
|
|
(sha256
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|
(base32
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|
"061x84ildc7g1p91yw5iyj8lpqdf4hqv36as85lw8c6qv9ywbsqv"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/mdlincoln/clipr")
|
|
(synopsis "Read and write from the system clipboard")
|
|
(description
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|
"This package provides simple utility functions to read from and write to
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the system clipboards.")
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(license license:gpl3)))
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|
|
(define-public r-tidyverse
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|
(package
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|
(name "r-tidyverse")
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(version "1.2.1")
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|
(source
|
|
(origin
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|
(method url-fetch)
|
|
(uri (cran-uri "tidyverse" version))
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|
(sha256
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|
(base32
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|
"0yy3fkjksgcn6wkbgsb0pbnmsyqs4m01mziqafhig578nixs4rxd"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-broom" ,r-broom)
|
|
("r-cli" ,r-cli)
|
|
("r-crayon" ,r-crayon)
|
|
("r-dbplyr" ,r-dbplyr)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-forcats" ,r-forcats)
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|
("r-ggplot2" ,r-ggplot2)
|
|
("r-haven" ,r-haven)
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|
("r-hms" ,r-hms)
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|
("r-httr" ,r-httr)
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|
("r-jsonlite" ,r-jsonlite)
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|
("r-lubridate" ,r-lubridate)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-modelr" ,r-modelr)
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|
("r-purrr" ,r-purrr)
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|
("r-readr" ,r-readr)
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|
("r-readxl" ,r-readxl)
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|
("r-reprex" ,r-reprex)
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|
("r-rlang" ,r-rlang)
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|
("r-rstudioapi" ,r-rstudioapi)
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|
("r-rvest" ,r-rvest)
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|
("r-stringr" ,r-stringr)
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|
("r-tibble" ,r-tibble)
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|
("r-tidyr" ,r-tidyr)
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|
("r-xml2" ,r-xml2)))
|
|
(home-page "https://tidyverse.tidyverse.org")
|
|
(synopsis "Install and load packages from the \"Tidyverse\"")
|
|
(description
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|
"The @code{tidyverse} is a set of packages that work in harmony because
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they share common data representations and API design. This package is
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designed to make it easy to install and load multiple tidyverse packages in a
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single step.")
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(license license:gpl3)))
|
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|
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(define-public r-rvest
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(package
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(name "r-rvest")
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(version "0.3.2")
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(source
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|
(origin
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|
(method url-fetch)
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|
(uri (cran-uri "rvest" version))
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|
(sha256
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|
(base32
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|
"04mv99z8dixywx96kfy4215g6ib23s7qvd77hcf9pxqxzcvqhvhd"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-httr" ,r-httr)
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("r-magrittr" ,r-magrittr)
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|
("r-selectr" ,r-selectr)
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("r-xml2" ,r-xml2)))
|
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(home-page "https://github.com/hadley/rvest")
|
|
(synopsis "Simple web scraping for R")
|
|
(description
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"@code{r-rvest} helps you scrape information from web pages. It is
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designed to work with @code{magrittr} to make it easy to express common web
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scraping tasks, inspired by libraries like @code{BeautifulSoup}.")
|
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(license license:gpl3)))
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|
|
(define-public r-selectr
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(package
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(name "r-selectr")
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(version "0.4-1")
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(source
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(origin
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|
(method url-fetch)
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|
(uri (cran-uri "selectr" version))
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|
(sha256
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|
(base32
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|
"1jp27rxks4w29l47k42869hp8hnkzq2rnvsqbr44wd19fqb2zm4b"))))
|
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(build-system r-build-system)
|
|
(propagated-inputs
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|
`(("r-stringr" ,r-stringr)
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("r-r6" ,r-r6)))
|
|
(home-page "https://sjp.co.nz/projects/selectr/")
|
|
(synopsis "Translate CSS selectors to XPath expressions")
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|
(description
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|
"@code{r-selectr} translates a CSS3 selector into an equivalent XPath
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expression. This allows you to use CSS selectors when working with the XML
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package as it can only evaluate XPath expressions. Also provided are
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convenience functions useful for using CSS selectors on XML nodes. This
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package is a port of the Python package @code{cssselect}.")
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(license license:bsd-3)))
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(define-public r-reprex
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(package
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(name "r-reprex")
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(version "0.2.0")
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(source
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|
(origin
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|
(method url-fetch)
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|
(uri (cran-uri "reprex" version))
|
|
(sha256
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|
(base32
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|
"1l44pxjiz3g0jkk3v6rg5jps3llihfiah0qyv40s0bxvxa6gm8v9"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
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|
`(("r-callr" ,r-callr)
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|
("r-clipr" ,r-clipr)
|
|
("r-knitr" ,r-knitr)
|
|
("r-rlang" ,r-rlang)
|
|
("r-rmarkdown" ,r-rmarkdown)
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|
("r-whisker" ,r-whisker)
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|
("r-withr" ,r-withr)))
|
|
(home-page "https://github.com/tidyverse/reprex")
|
|
(synopsis "Prepare reproducible R code examples for sharing")
|
|
(description
|
|
"This package provides a convenience wrapper that uses the
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@code{rmarkdown} package to render small snippets of code to target formats
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that include both code and output. The goal is to encourage the sharing of
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small, reproducible, and runnable examples on code-oriented websites or email.
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@code{reprex} also extracts clean, runnable R code from various common formats,
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such as copy/paste from an R session.")
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(license license:expat)))
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|
(define-public r-callr
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(package
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(name "r-callr")
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(version "3.0.0")
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|
(source
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|
(origin
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|
(method url-fetch)
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|
(uri (cran-uri "callr" version))
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|
(sha256
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|
(base32
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|
"1rxbxy6kn7dj90z9hpppr9cnpvnxzknba2dwrdp0lrk5dh462qz3"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
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|
`(("r-base64enc" ,r-base64enc)
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|
("r-r6" ,r-r6)
|
|
("r-processx" ,r-processx)))
|
|
(home-page "https://github.com/r-lib/callr#readme")
|
|
(synopsis "Call R from R")
|
|
(description
|
|
"It is sometimes useful to perform a computation in a separate R process,
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|
without affecting the current R process at all. This packages does exactly
|
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that.")
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|
(license license:expat)))
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|
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(define-public r-readxl
|
|
(package
|
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(name "r-readxl")
|
|
(version "1.1.0")
|
|
(source
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|
(origin
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|
(method url-fetch)
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|
(uri (cran-uri "readxl" version))
|
|
(sha256
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|
(base32
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|
"05ii8knrg4jji6h7bv6bfpn279b6x52yrskdx5rv7b0hcpy22gdn"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-cellranger" ,r-cellranger)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-tibble" ,r-tibble)))
|
|
(home-page "https://readxl.tidyverse.org")
|
|
(synopsis "Read Excel files")
|
|
(description
|
|
"This package lets you import Excel files into R. It supports
|
|
@file{.xls} via the embedded @code{libxls} C library and @file{.xlsx} via
|
|
the embedded @code{RapidXML} C++ library.")
|
|
;; XXX: This package bundles a copy of 'libxsl' which is BSD-2 and
|
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;; 'rapidxml' which is Boost.
|
|
(license (list license:gpl3 license:bsd-2 license:boost1.0))))
|
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|
|
(define-public r-modelr
|
|
(package
|
|
(name "r-modelr")
|
|
(version "0.1.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "modelr" version))
|
|
(sha256
|
|
(base32
|
|
"09whg3q5xq6csbqwgwfwav09vda8vgady5j70sk52xcn232k363a"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-broom" ,r-broom)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-lazyeval" ,r-lazyeval)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-purrr" ,r-purrr)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyr" ,r-tidyr)))
|
|
(home-page "https://github.com/tidyverse/modelr")
|
|
(synopsis "Helper functions for modelling in pipelines")
|
|
(description
|
|
"Functions for modelling that help you seamlessly integrate modelling
|
|
into a pipeline of data manipulation and visualisation.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-haven
|
|
(package
|
|
(name "r-haven")
|
|
(version "1.1.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "haven" version))
|
|
(sha256
|
|
(base32
|
|
"0pp8xjf5lzqg1wr8cwxj4njx99vxwlflwjrd7jvyzwlfpwh7n1qa"))))
|
|
(build-system r-build-system)
|
|
(inputs
|
|
`(("zlib" ,zlib)))
|
|
(propagated-inputs
|
|
`(("r-forcats" ,r-forcats)
|
|
("r-hms" ,r-hms)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-readr" ,r-readr)
|
|
("r-tibble" ,r-tibble)))
|
|
(home-page "https://haven.tidyverse.org")
|
|
(synopsis "Import and Export 'SPSS', 'Stata' and 'SAS' Files")
|
|
(description
|
|
"This package lets you mport foreign statistical formats into R via the
|
|
embedded @url{https://github.com/WizardMac/ReadStat,ReadStat} C library.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-amap
|
|
(package
|
|
(name "r-amap")
|
|
(version "0.8-16")
|
|
(source (origin
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|
(method url-fetch)
|
|
(uri (cran-uri "amap" version))
|
|
(sha256
|
|
(base32
|
|
"1qnl2x98x64iaipkx5126rsddq2sx5ml43h75xyiyn30yvbmlxyk"))))
|
|
(build-system r-build-system)
|
|
(inputs
|
|
`(("gfortran" ,gfortran)))
|
|
(home-page "http://mulcyber.toulouse.inra.fr/projects/amap/")
|
|
(synopsis "Another multidimensional analysis package")
|
|
(description "This package provides tools for clustering and principal
|
|
component analysis (with robust methods, and parallelized functions).")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ape
|
|
(package
|
|
(name "r-ape")
|
|
(version "5.1")
|
|
(source
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|
(origin
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|
(method url-fetch)
|
|
(uri (cran-uri "ape" version))
|
|
(sha256
|
|
(base32
|
|
"0vm2065993wf4hdqarxqykhfz9aaj0rrb98alhkq4qw1d2kdrmdp"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-lattice" ,r-lattice)
|
|
("r-nlme" ,r-nlme)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "http://ape-package.ird.fr/")
|
|
(synopsis "Analyses of phylogenetics and evolution")
|
|
(description
|
|
"This package provides functions for reading, writing, plotting, and
|
|
manipulating phylogenetic trees, analyses of comparative data in a
|
|
phylogenetic framework, ancestral character analyses, analyses of
|
|
diversification and macroevolution, computing distances from DNA sequences,
|
|
and several other tools.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-abbyyr
|
|
(package
|
|
(name "r-abbyyr")
|
|
(version "0.5.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "abbyyR" version))
|
|
(sha256
|
|
(base32
|
|
"1jh1c1ad6mgw7brdh2isnza1qpjlfxnqr7jl76yd93axyfl76xjx"))))
|
|
(properties `((upstream-name . "abbyyR")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-curl" ,r-curl)
|
|
("r-httr" ,r-httr)
|
|
("r-plyr" ,r-plyr)
|
|
("r-progress" ,r-progress)
|
|
("r-readr" ,r-readr)
|
|
("r-xml" ,r-xml)))
|
|
(home-page "https://github.com/soodoku/abbyyR")
|
|
(synopsis "Access to Abbyy Optical Character Recognition (OCR) API")
|
|
(description
|
|
"This package provides tools to get text from images of text using Abbyy
|
|
Cloud Optical Character Recognition (OCR) API. With abbyyyR, one can easily
|
|
OCR images, barcodes, forms, documents with machine readable zones, e.g.
|
|
passports and get the results in a variety of formats including plain text and
|
|
XML. To learn more about the Abbyy OCR API, see @url{http://ocrsdk.com/}.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-colorspace
|
|
(package
|
|
(name "r-colorspace")
|
|
(version "1.3-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "colorspace" version))
|
|
(sha256
|
|
(base32 "0d1ya7hx4y58n5ivwmdmq2zgh0g2sbv7ykh13n85c1355csd57yx"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/colorspace")
|
|
(synopsis "Color space manipulation")
|
|
(description
|
|
"This package carries out a mapping between assorted color spaces
|
|
including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB and polar
|
|
CIELAB. Qualitative, sequential, and diverging color palettes based on HCL
|
|
colors are provided.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public r-glue
|
|
(package
|
|
(name "r-glue")
|
|
(version "1.3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "glue" version))
|
|
(sha256
|
|
(base32
|
|
"1vhw5497lpfr4m8lcx9bs0fgdp4ax0sycrk6n8yksp33qd25m7kq"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/tidyverse/glue")
|
|
(synopsis "Interpreted string literals")
|
|
(description
|
|
"This package provides an implementation of interpreted string literals,
|
|
inspired by Python's Literal String Interpolation (PEP-0498) and
|
|
Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-pastecs
|
|
(package
|
|
(name "r-pastecs")
|
|
(version "1.3.21")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pastecs" version))
|
|
(sha256
|
|
(base32
|
|
"0z4dic94ar646w7zc2ggi5hgvf2qnznsani94c5pyql8zspz47lc"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-boot" ,r-boot)))
|
|
(home-page "http://www.sciviews.org/pastecs")
|
|
(synopsis "Analysis of space-time ecological series")
|
|
(description
|
|
"This package provides functions for regulation, decomposition and analysis
|
|
of space-time series. The @code{pastecs} library is a PNEC-Art4 and IFREMER
|
|
initiative to bring PASSTEC 2000 functionalities to R.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-plogr
|
|
(package
|
|
(name "r-plogr")
|
|
(version "0.2.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "plogr" version))
|
|
(sha256
|
|
(base32
|
|
"0a8dhzlna79ggyhfr0nncgh15a9n6r0dsz664pz0ah323wpblqqf"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/krlmlr/plogr")
|
|
(synopsis "R bindings for the plog C++ logging library")
|
|
(description
|
|
"This package provides the header files for a stripped-down version of
|
|
the plog header-only C++ logging library, and a method to log to R's standard
|
|
error stream.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-pls
|
|
(package
|
|
(name "r-pls")
|
|
(version "2.7-0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pls" version))
|
|
(sha256
|
|
(base32
|
|
"0xaqqgmdvfh7g7v1m4bcwjqzph68b9cq3bn4kjisfsadl54i5p2x"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://mevik.net/work/software/pls.html")
|
|
(synopsis "Partial Least Squares and Principal Component Regression")
|
|
(description
|
|
"The pls package implements multivariate regression methods: Partial Least
|
|
Squares Regression (@dfn{PLSR}), Principal Component Regression (@dfn{PCR}), and
|
|
Canonical Powered Partial Least Squares (@dfn{CPPLS}). It supports:
|
|
|
|
@itemize
|
|
@item several algorithms: the traditional orthogonal scores (@dfn{NIPALS}) PLS
|
|
algorithm, kernel PLS, wide kernel PLS, Simpls, and PCR through @code{svd}
|
|
@item multi-response models (or @dfn{PLS2})
|
|
@item flexible cross-validation
|
|
@item Jackknife variance estimates of regression coefficients
|
|
@item extensive and flexible plots: scores, loadings, predictions, coefficients,
|
|
(R)MSEP, R², and correlation loadings
|
|
@item formula interface, modelled after @code{lm()}, with methods for predict,
|
|
print, summary, plot, update, etc.
|
|
@item extraction functions for coefficients, scores, and loadings
|
|
@item MSEP, RMSEP, and R² estimates
|
|
@item multiplicative scatter correction (@dfn{MSC})
|
|
@end itemize\n")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ps
|
|
(package
|
|
(name "r-ps")
|
|
(version "1.1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ps" version))
|
|
(sha256
|
|
(base32 "1zm9qkyvy1fvcjvmgw51iqw8x1xzkpy7rx7xnchwfj0xpzal0ljx"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://ps.r-lib.org")
|
|
(synopsis "List, query, and manipulate system processes")
|
|
(description
|
|
"The ps package implements an API to list, query, and manipulate system
|
|
processes. Most of its code is based on the @code{psutil} Python package.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public r-pkgbuild
|
|
(package
|
|
(name "r-pkgbuild")
|
|
(version "1.0.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pkgbuild" version))
|
|
(sha256
|
|
(base32
|
|
"10iz8057mixl9j73pq2cbp4ib6dadfsgi3fcsjjm7l3wwb9issd9"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-callr" ,r-callr)
|
|
("r-crayon" ,r-crayon)
|
|
("r-desc" ,r-desc)
|
|
("r-r6" ,r-r6)
|
|
("r-rprojroot" ,r-rprojroot)
|
|
("r-withr" ,r-withr)))
|
|
(home-page "https://github.com/r-pkgs/pkgbuild")
|
|
(synopsis "Find tools needed to build R packages")
|
|
(description
|
|
"This package provides functions used to build R packages. It locates
|
|
compilers needed to build R packages on various platforms and ensures the PATH
|
|
is configured appropriately so R can use them.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-pkgload
|
|
(package
|
|
(name "r-pkgload")
|
|
(version "1.0.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pkgload" version))
|
|
(sha256
|
|
(base32
|
|
"1rjj229nq9fsl4ki4m75ybsavjgpqqhsr1zjzapwicsrxv6212px"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-desc" ,r-desc)
|
|
("r-pkgbuild" ,r-pkgbuild)
|
|
("r-rlang" ,r-rlang)
|
|
("r-rprojroot" ,r-rprojroot)
|
|
("r-rstudioapi" ,r-rstudioapi)
|
|
("r-withr" ,r-withr)))
|
|
(home-page "https://github.com/r-lib/pkgload")
|
|
(synopsis "Simulate package installation and attach")
|
|
(description
|
|
"This package simulates the process of installing a package and then
|
|
attaching it. This is a key part of the @code{devtools} package as it allows
|
|
you to rapidly iterate while developing a package.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-rcpp
|
|
(package
|
|
(name "r-rcpp")
|
|
(version "0.12.18")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "Rcpp" version))
|
|
(sha256
|
|
(base32 "006kpg2ph109rh1l13lqk26pp4as4fvl5661vrcczjygacgd1v7w"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.rcpp.org")
|
|
(synopsis "Seamless R and C++ integration")
|
|
(description
|
|
"The Rcpp package provides R functions as well as C++ classes which offer
|
|
a seamless integration of R and C++. Many R data types and objects can be
|
|
mapped back and forth to C++ equivalents which facilitates both writing of new
|
|
code as well as easier integration of third-party libraries. Documentation
|
|
about Rcpp is provided by several vignettes included in this package, via the
|
|
'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel
|
|
and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
|
|
'citation(\"Rcpp\")' for details on these last two.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-bindr
|
|
(package
|
|
(name "r-bindr")
|
|
(version "0.1.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "bindr" version))
|
|
(sha256
|
|
(base32
|
|
"1l05fpk2yql3jka321c0bdgx6mqq9pvfrg2844lbjfpbgjkmqy3w"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/krlmlr/bindr")
|
|
(synopsis "Parametrized active bindings")
|
|
(description
|
|
"This package provides a simple interface for creating active bindings
|
|
where the bound function accepts additional arguments.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-bindrcpp
|
|
(package
|
|
(name "r-bindrcpp")
|
|
(version "0.2.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "bindrcpp" version))
|
|
(sha256
|
|
(base32
|
|
"0rz4ibjdjsxl99ff3ha79z7cnjmilx4rx58fk9kk7ld9xc4hf4s8"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-bindr" ,r-bindr)
|
|
("r-plogr" ,r-plogr)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://github.com/krlmlr/bindrcpp")
|
|
(synopsis "Rcpp interface to active bindings")
|
|
(description
|
|
"This package provides an easy way to fill an environment with active
|
|
bindings that call a C++ function.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-auc
|
|
(package
|
|
(name "r-auc")
|
|
(version "0.3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "AUC" version))
|
|
(sha256
|
|
(base32
|
|
"0ripcib2qz0m7rgr1kiz68nx8f6p408l1ww7j78ljqik7p3g41g7"))))
|
|
(properties `((upstream-name . "AUC")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/AUC")
|
|
(synopsis "Compute the area under the curve of selected measures")
|
|
(description
|
|
"This package includes functions to compute the area under the curve of
|
|
selected measures: the area under the sensitivity curve (AUSEC), the area
|
|
under the specificity curve (AUSPC), the area under the accuracy
|
|
curve (AUACC), and the area under the receiver operating characteristic
|
|
curve (AUROC). The curves can also be visualized. Support for partial areas
|
|
is provided.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-calibrate
|
|
(package
|
|
(name "r-calibrate")
|
|
(version "1.7.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "calibrate" version))
|
|
(sha256
|
|
(base32
|
|
"010nb1nb9y7zhw2k6d2i2drwy5brp7b83mjj2w7i3wjp9xb6l1kq"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-mass" ,r-mass)))
|
|
(home-page "https://cran.r-project.org/web/packages/calibrate")
|
|
(synopsis "Calibration of scatterplot and biplot axes")
|
|
(description
|
|
"This is a package for drawing calibrated scales with tick marks
|
|
on (non-orthogonal) variable vectors in scatterplots and biplots.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-shape
|
|
(package
|
|
(name "r-shape")
|
|
(version "1.4.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "shape" version))
|
|
(sha256
|
|
(base32
|
|
"0hadk3mapkhbh8xjkiz52vxdagmmgvm15xwpzb90ikw4giyipjzl"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/shape")
|
|
(synopsis "Functions for plotting graphical shapes")
|
|
(description
|
|
"This package provides functions for plotting graphical shapes such as
|
|
ellipses, circles, cylinders, arrows, ...")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-globaloptions
|
|
(package
|
|
(name "r-globaloptions")
|
|
(version "0.1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "GlobalOptions" version))
|
|
(sha256
|
|
(base32
|
|
"1wlyqz1yhmhjwslrd7q69jbd9vsbjkjfc01g60kl3cdpyr8hlyjn"))))
|
|
(properties `((upstream-name . "GlobalOptions")))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/jokergoo/GlobalOptions")
|
|
(synopsis "Generate functions to get or set global options")
|
|
(description
|
|
"This package provides more controls on the option values such as
|
|
validation and filtering on the values, making options invisible or private.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-circlize
|
|
(package
|
|
(name "r-circlize")
|
|
(version "0.4.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "circlize" version))
|
|
(sha256
|
|
(base32
|
|
"1l28maiqi549z191srncxgabx5fnvf0lld7smzwfd3vr5cx8nqww"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-colorspace" ,r-colorspace)
|
|
("r-globaloptions" ,r-globaloptions)
|
|
("r-shape" ,r-shape)))
|
|
(home-page "https://github.com/jokergoo/circlize")
|
|
(synopsis "Circular visualization")
|
|
(description
|
|
"Circular layout is an efficient way to visualise huge amounts of
|
|
information. This package provides an implementation of circular layout
|
|
generation in R as well as an enhancement of available software. Its
|
|
flexibility is based on the usage of low-level graphics functions such that
|
|
self-defined high-level graphics can be easily implemented by users for
|
|
specific purposes. Together with the seamless connection between the powerful
|
|
computational and visual environment in R, it gives users more convenience and
|
|
freedom to design figures for better understanding complex patterns behind
|
|
multi-dimensional data.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-powerlaw
|
|
(package
|
|
(name "r-powerlaw")
|
|
(version "0.70.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "poweRlaw" version))
|
|
(sha256
|
|
(base32
|
|
"04sr0nhdd1v915m0zf5gasznzgi08ykcy20kkwdw0l5mvvdbic8m"))))
|
|
(properties `((upstream-name . "poweRlaw")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-vgam" ,r-vgam)))
|
|
(home-page "https://github.com/csgillespie/poweRlaw")
|
|
(synopsis "Tools for the analysis of heavy tailed distributions")
|
|
(description
|
|
"This package provides an implementation of maximum likelihood estimators
|
|
for a variety of heavy tailed distributions, including both the discrete and
|
|
continuous power law distributions. Additionally, a goodness-of-fit based
|
|
approach is used to estimate the lower cut-off for the scaling region.")
|
|
;; Any of these GPL versions.
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-compare
|
|
(package
|
|
(name "r-compare")
|
|
(version "0.2-6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "compare" version))
|
|
(sha256
|
|
(base32
|
|
"0k9zms930b5dz9gy8414li21wy0zg9x9vp7301v5cvyfi0g7xzgw"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/compare")
|
|
(synopsis "Comparing objects for differences")
|
|
(description
|
|
"This package provides functions to compare a model object to a
|
|
comparison object. If the objects are not identical, the functions can be
|
|
instructed to explore various modifications of the objects (e.g., sorting
|
|
rows, dropping names) to see if the modified versions are identical.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-dendextend
|
|
(package
|
|
(name "r-dendextend")
|
|
(version "1.8.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "dendextend" version))
|
|
(sha256
|
|
(base32
|
|
"1virn3c232xwcq3d0hhkgjh5gpzl01s39iwii5gxcm9mnsxjzdrh"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-fpc" ,r-fpc)
|
|
("r-ggplot2" ,r-ggplot2)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-viridis" ,r-viridis)
|
|
("r-whisker" ,r-whisker)))
|
|
(home-page "https://cran.r-project.org/web/packages/dendextend")
|
|
(synopsis "Extending 'dendrogram' functionality in R")
|
|
(description
|
|
"This package offers a set of functions for extending @code{dendrogram}
|
|
objects in R, letting you visualize and compare trees of hierarchical
|
|
clusterings. You can adjust a tree's graphical parameters (the color, size,
|
|
type, etc of its branches, nodes and labels) and visually and statistically
|
|
compare different dendrograms to one another.")
|
|
;; Any of these versions
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-getoptlong
|
|
(package
|
|
(name "r-getoptlong")
|
|
(version "0.1.7")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "GetoptLong" version))
|
|
(sha256
|
|
(base32
|
|
"1fl3w2n602ldybc5qj7qw4xmzzb804bsjkqwf6dswzj0vf0qiadr"))))
|
|
(properties `((upstream-name . "GetoptLong")))
|
|
(build-system r-build-system)
|
|
(inputs
|
|
`(("perl" ,perl)))
|
|
(propagated-inputs
|
|
`(("r-globaloptions" ,r-globaloptions)
|
|
("r-rjson" ,r-rjson)))
|
|
(home-page "https://github.com/jokergoo/GetoptLong")
|
|
(synopsis "Parsing command-line arguments and variable interpolation")
|
|
(description
|
|
"This is yet another command-line argument parser which wraps the
|
|
powerful Perl module @code{Getopt::Long} and with some adaptation for easier
|
|
use in R. It also provides a simple way for variable interpolation in R.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-fastmatch
|
|
(package
|
|
(name "r-fastmatch")
|
|
(version "1.1-0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "fastmatch" version))
|
|
(sha256
|
|
(base32
|
|
"0z80jxkygmzn11sq0c2iz357s9bpki548lg926g85gldhfj1md90"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.rforge.net/fastmatch")
|
|
(synopsis "Fast match function")
|
|
(description
|
|
"This package provides a fast @code{match} replacement for cases that
|
|
require repeated look-ups. It is slightly faster that R's built-in
|
|
@code{match} function on first match against a table, but extremely fast on
|
|
any subsequent lookup as it keeps the hash table in memory.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ff
|
|
(package
|
|
(name "r-ff")
|
|
(version "2.2-14")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ff" version))
|
|
(sha256
|
|
(base32
|
|
"1w724q4jpzbvzpilb2ifviaxkjgk9lzwxz9gksnvicbmfa20fqqw"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-bit" ,r-bit)))
|
|
(home-page "http://ff.r-forge.r-project.org/")
|
|
(synopsis "Memory-efficient storage of large data on disk and access functions")
|
|
(description
|
|
"This package provides data structures that are stored on disk but
|
|
behave (almost) as if they were in RAM by transparently mapping only a section
|
|
in main memory.")
|
|
;; error Architecture not supported.
|
|
(supported-systems (delete "aarch64-linux" %supported-systems))
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ffbase
|
|
(package
|
|
(name "r-ffbase")
|
|
(version "0.12.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ffbase" version))
|
|
(sha256
|
|
(base32
|
|
"1nz97bndxxkzp8rq6va8ff5ky9vkaib1jybm6j852awwb3n9had5"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-bit" ,r-bit)
|
|
("r-fastmatch" ,r-fastmatch)
|
|
("r-ff" ,r-ff)))
|
|
(home-page "http://github.com/edwindj/ffbase")
|
|
(synopsis "Basic statistical functions for package 'ff'")
|
|
(description
|
|
"This package extends the out of memory vectors of @code{ff} with
|
|
statistical functions and other utilities to ease their usage.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-prettyunits
|
|
(package
|
|
(name "r-prettyunits")
|
|
(version "1.0.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "prettyunits" version))
|
|
(sha256
|
|
(base32
|
|
"0p3z42hnk53x7ky4d1dr2brf7p8gv3agxr71i99m01n2hq2ri91m"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-assertthat" ,r-assertthat)
|
|
("r-magrittr" ,r-magrittr)))
|
|
(home-page "https://github.com/gaborcsardi/prettyunits")
|
|
(synopsis "Pretty, human readable formatting of quantities")
|
|
(description
|
|
"This package provides tools for pretty, human readable formatting of
|
|
quantities.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-reshape
|
|
(package
|
|
(name "r-reshape")
|
|
(version "0.8.7")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "reshape" version))
|
|
(sha256
|
|
(base32
|
|
"14ir3w4bb3bsz8jsak27nj7kpn227pdgr9653gjq5wc93rywi9ig"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-plyr" ,r-plyr)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "http://had.co.nz/reshape")
|
|
(synopsis "Flexibly reshape data")
|
|
(description
|
|
"Flexibly restructure and aggregate data using just two functions:
|
|
@code{melt} and @code{cast}. This package provides them.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-progress
|
|
(package
|
|
(name "r-progress")
|
|
(version "1.2.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "progress" version))
|
|
(sha256
|
|
(base32
|
|
"1rhwm0bdw30z3rvl0bn56xprjl3zrdy7150w4gl4bkvn2d6h9fav"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-crayon" ,r-crayon)
|
|
("r-hms" ,r-hms)
|
|
("r-prettyunits" ,r-prettyunits)
|
|
("r-r6" ,r-r6)))
|
|
(home-page "https://github.com/gaborcsardi/progress")
|
|
(synopsis "Terminal progress bars")
|
|
(description
|
|
"This package provides configurable progress bars. They may include
|
|
percentage, elapsed time, and/or the estimated completion time. They work in
|
|
terminals, in Emacs ESS, RStudio, Windows Rgui, and the macOS R.app. The
|
|
package also provides a C++ API, that works with or without Rcpp.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-ggally
|
|
(package
|
|
(name "r-ggally")
|
|
(version "1.4.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "GGally" version))
|
|
(sha256
|
|
(base32
|
|
"1zjmcc5bzagvy7c5cmdcl39xmx07fwi98yrj4i05w7y40kqcsiws"))))
|
|
(properties `((upstream-name . "GGally")))
|
|
(build-system r-build-system)
|
|
(inputs
|
|
`(("libressl" ,libressl)))
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-gtable" ,r-gtable)
|
|
("r-plyr" ,r-plyr)
|
|
("r-progress" ,r-progress)
|
|
("r-rcolorbrewer" ,r-rcolorbrewer)
|
|
("r-reshape" ,r-reshape)
|
|
("r-rlang" ,r-rlang)))
|
|
(home-page "https://ggobi.github.io/ggally")
|
|
(synopsis "Extension to ggplot2")
|
|
(description
|
|
"The R package ggplot2 is a plotting system based on the grammar of
|
|
graphics. GGally extends ggplot2 by adding several functions to reduce the
|
|
complexity of combining geometric objects with transformed data. Some of
|
|
these functions include a pairwise plot matrix, a two group pairwise plot
|
|
matrix, a parallel coordinates plot, a survival plot, and several functions to
|
|
plot networks.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-proxy
|
|
(package
|
|
(name "r-proxy")
|
|
(version "0.4-22")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "proxy" version))
|
|
(sha256
|
|
(base32
|
|
"0l0ff8irmmvic941is290hd5vszyhaj5nfwna4v3w9c1zk5nr1ma"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/proxy")
|
|
(synopsis "Distance and similarity measures")
|
|
(description
|
|
"This package provides an extensible framework for the efficient
|
|
calculation of auto- and cross-proximities, along with implementations of the
|
|
most popular ones.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-sp
|
|
(package
|
|
(name "r-sp")
|
|
(version "1.3-1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sp" version))
|
|
(sha256
|
|
(base32
|
|
"17xm1ig80p9wc860hm3bgishz6lj9fxgwqidj7rkbk4ap99qp62p"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-lattice" ,r-lattice)))
|
|
(home-page "https://cran.r-project.org/web/packages/sp")
|
|
(synopsis "Classes and methods for spatial data")
|
|
(description
|
|
"This package provides classes and methods for spatial data; the classes
|
|
document where the spatial location information resides, for 2D or 3D data.
|
|
Utility functions are provided, e.g. for plotting data as maps, spatial
|
|
selection, as well as methods for retrieving coordinates, for subsetting,
|
|
print, summary, etc.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-rmtstat
|
|
(package
|
|
(name "r-rmtstat")
|
|
(version "0.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "RMTstat" version))
|
|
(sha256
|
|
(base32
|
|
"1nn25q4kmh9kj975sxkrpa97vh5irqrlqhwsfinbck6h6ia4rsw1"))))
|
|
(properties `((upstream-name . "RMTstat")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/RMTstat")
|
|
(synopsis "Distributions, statistics and tests derived from random matrix theory")
|
|
(description
|
|
"This package provides functions for working with the Tracy-Widom laws
|
|
and other distributions related to the eigenvalues of large Wishart
|
|
matrices.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public r-rmpi
|
|
(package
|
|
(name "r-rmpi")
|
|
(version "0.6-7")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "Rmpi" version))
|
|
(sha256
|
|
(base32
|
|
"1b62gs7w1xqadqd7ir41jnxlcf14gcqfxd0915kn9ckdlsdrh0sw"))))
|
|
(properties `((upstream-name . "Rmpi")))
|
|
(build-system r-build-system)
|
|
(arguments
|
|
`(#:configure-flags '("--configure-args=\"--with-Rmpi-type=OPENMPI\"")))
|
|
(inputs
|
|
`(("openmpi" ,openmpi)))
|
|
(native-inputs
|
|
`(("pkg-config" ,pkg-config)))
|
|
(home-page "http://www.stats.uwo.ca/faculty/yu/Rmpi")
|
|
(synopsis "R interface to message-passing interface (MPI)")
|
|
(description
|
|
"This package provides an interface (wrapper) to MPI APIs. It also
|
|
provides an interactive R manager and worker environment.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-lmoments
|
|
(package
|
|
(name "r-lmoments")
|
|
(version "1.2-3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "Lmoments" version))
|
|
(sha256
|
|
(base32
|
|
"13p0r4w16jvjnyjmkhkp3dwdfr1gap2l0k4k5jy41m8nc5fvcx79"))))
|
|
(properties `((upstream-name . "Lmoments")))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.tilastotiede.fi/juha_karvanen.html")
|
|
(synopsis "L-moments and quantile mixtures")
|
|
(description
|
|
"This package contains functions to estimate L-moments and trimmed
|
|
L-moments from the data. It also contains functions to estimate the
|
|
parameters of the normal polynomial quantile mixture and the Cauchy polynomial
|
|
quantile mixture from L-moments and trimmed L-moments.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-distillery
|
|
(package
|
|
(name "r-distillery")
|
|
(version "1.0-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "distillery" version))
|
|
(sha256
|
|
(base32
|
|
"1m0pgmlvk7bsb6q3kxagnq422babk61sf73naavac68v8x2q8fix"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.ral.ucar.edu/staff/ericg")
|
|
(synopsis "Functions for confidence intervals and object information")
|
|
(description
|
|
"This package provides some very simple method functions for confidence
|
|
interval calculation and to distill pertinent information from a potentially
|
|
complex object; primarily used in common with the packages extRemes and
|
|
SpatialVx.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-extremes
|
|
(package
|
|
(name "r-extremes")
|
|
(version "2.0-9")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "extRemes" version))
|
|
(sha256
|
|
(base32
|
|
"0cpvcajk9xyy7662nqkyx333vrxpwsc5nmv0bfnhsbgijz5y0hvm"))))
|
|
(properties `((upstream-name . "extRemes")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-car" ,r-car)
|
|
("r-distillery" ,r-distillery)
|
|
("r-lmoments" ,r-lmoments)))
|
|
(home-page "http://www.assessment.ucar.edu/toolkit/")
|
|
(synopsis "Extreme value analysis")
|
|
(description
|
|
"ExtRemes is a suite of functions for carrying out analyses on the
|
|
extreme values of a process of interest; be they block maxima over long blocks
|
|
or excesses over a high threshold.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-lmtest
|
|
(package
|
|
(name "r-lmtest")
|
|
(version "0.9-36")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "lmtest" version))
|
|
(sha256
|
|
(base32
|
|
"0sym9sm1vl6bbgq01jhz1plxqmgh8hrgrn7rw0mwvsalcn6id7xy"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-zoo" ,r-zoo)))
|
|
(native-inputs
|
|
`(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/lmtest")
|
|
(synopsis "Testing linear regression models")
|
|
(description
|
|
"This package provides a collection of tests, data sets, and examples for
|
|
diagnostic checking in linear regression models. Furthermore, some generic
|
|
tools for inference in parametric models are provided.")
|
|
;; Either version is okay
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-idr
|
|
(package
|
|
(name "r-idr")
|
|
(version "1.2")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "idr" version))
|
|
(sha256
|
|
(base32
|
|
"05nvgw1xdg670bsjjrxkgd1mrdkciccpw4krn0zcgdf2r21dzgwb"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/idr/")
|
|
(synopsis "Irreproducible discovery rate")
|
|
(description
|
|
"This is a package for estimating the copula mixture model and plotting
|
|
correspondence curves in \"Measuring reproducibility of high-throughput
|
|
experiments\" (2011), Annals of Applied Statistics, Vol. 5, No. 3, 1752-1779,
|
|
by Li, Brown, Huang, and Bickel")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-inline
|
|
(package
|
|
(name "r-inline")
|
|
(version "0.3.15")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "inline" version))
|
|
(sha256
|
|
(base32
|
|
"0s4wssvpan189fijahknxq5s22ww9bzmdlmyhnra748r7khky17z"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/inline")
|
|
(synopsis "Functions to inline C, C++, Fortran function calls from R")
|
|
(description
|
|
"This package provides functionality to dynamically define R functions
|
|
and S4 methods with inlined C, C++ or Fortran code supporting @code{.C} and
|
|
@code{.Call} calling conventions.")
|
|
;; Any version of the LGPL.
|
|
(license license:lgpl3+)))
|
|
|
|
(define-public r-bbmle
|
|
(package
|
|
(name "r-bbmle")
|
|
(version "1.0.20")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "bbmle" version))
|
|
(sha256
|
|
(base32
|
|
"1xzij7swrrzl5ly8l3lw6awh486zcm00251dwqws1y23fbgyh3vc"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-lattice" ,r-lattice)
|
|
("r-mass" ,r-mass)
|
|
("r-numderiv" ,r-numderiv)))
|
|
(home-page "https://cran.r-project.org/web/packages/bbmle")
|
|
(synopsis "Tools for General Maximum Likelihood Estimation")
|
|
(description
|
|
"This package provides methods and functions for fitting maximum
|
|
likelihood models in R. This package modifies and extends the @code{mle}
|
|
classes in the @code{stats4} package.")
|
|
;; Any version of the GPL
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-emdbook
|
|
(package
|
|
(name "r-emdbook")
|
|
(version "1.3.10")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "emdbook" version))
|
|
(sha256
|
|
(base32
|
|
"0880cx6rqm9vgd2zxnd2k0igfl80gy7ak15w36clwlzavab59hmv"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-bbmle" ,r-bbmle)
|
|
("r-coda" ,r-coda)
|
|
("r-lattice" ,r-lattice)
|
|
("r-mass" ,r-mass)
|
|
("r-plyr" ,r-plyr)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "http://www.math.mcmaster.ca/bolker/emdbook")
|
|
(synopsis "Support functions and data for \"Ecological Models and Data\"")
|
|
(description
|
|
"This package provides auxiliary functions and data sets for \"Ecological
|
|
Models and Data\", a book presenting maximum likelihood estimation and related
|
|
topics for ecologists (ISBN 978-0-691-12522-0).")
|
|
;; Any GPL version
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-lpsolve
|
|
(package
|
|
(name "r-lpsolve")
|
|
(version "5.6.13")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "lpSolve" version))
|
|
(sha256
|
|
(base32
|
|
"13a9ry8xf5j1f2j6imqrxdgxqz3nqp9sj9b4ivyx9sid459irm6m"))))
|
|
(properties `((upstream-name . "lpSolve")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/lpSolve")
|
|
(synopsis "R interface to Lp_solve to solve linear/integer programs")
|
|
(description
|
|
"Lp_solve is software for solving linear, integer and mixed integer
|
|
programs. This implementation supplies a \"wrapper\" function in C and some R
|
|
functions that solve general linear/integer problems, assignment problems, and
|
|
transportation problems.")
|
|
(license license:lgpl2.0)))
|
|
|
|
(define-public r-limsolve
|
|
(package
|
|
(name "r-limsolve")
|
|
(version "1.5.5.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "limSolve" version))
|
|
(sha256
|
|
(base32
|
|
"1ll6ir42h3g2fzf0wqai213bm82gpwjj2hfma2np3mz024sc09rg"))))
|
|
(properties `((upstream-name . "limSolve")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-lpsolve" ,r-lpsolve)
|
|
("r-mass" ,r-mass)
|
|
("r-quadprog" ,r-quadprog)))
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/limSolve")
|
|
(synopsis "Solving linear inverse models")
|
|
(description
|
|
"This package provides functions that:
|
|
|
|
@enumerate
|
|
@item find the minimum/maximum of a linear or quadratic function,
|
|
@item sample an underdetermined or overdetermined system,
|
|
@item solve a linear system Ax=B for the unknown x.
|
|
@end enumerate
|
|
|
|
It includes banded and tridiagonal linear systems. The package calls Fortran
|
|
functions from LINPACK.")
|
|
;; Any GPL version.
|
|
(license (list license:gpl2+ license:gpl3+))))
|
|
|
|
(define-public r-fitdistrplus
|
|
(package
|
|
(name "r-fitdistrplus")
|
|
(version "1.0-9")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "fitdistrplus" version))
|
|
(sha256
|
|
(base32
|
|
"18x9454g598d54763k3hvi33iszifk7sxvhd1zg5r8z1vpixx3z6"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-mass" ,r-mass)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "http://riskassessment.r-forge.r-project.org")
|
|
(synopsis "Fitting a parametric distribution from data")
|
|
(description
|
|
"This package extends the @code{fitdistr} function of the MASS package
|
|
with several functions to help the fit of a parametric distribution to
|
|
non-censored or censored data. Censored data may contain left-censored,
|
|
right-censored and interval-censored values, with several lower and upper
|
|
bounds. In addition to @dfn{maximum likelihood estimation} (MLE), the package
|
|
provides moment matching (MME), quantile matching (QME) and maximum
|
|
goodness-of-fit estimation (MGE) methods (available only for non-censored
|
|
data). Weighted versions of MLE, MME and QME are available.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-energy
|
|
(package
|
|
(name "r-energy")
|
|
(version "1.7-5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "energy" version))
|
|
(sha256
|
|
(base32
|
|
"15k9dg0a82cs9ypm0wpcsff3il1hzhnnv86dv5ngby1r144czhi4"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-boot" ,r-boot)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://cran.r-project.org/web/packages/energy")
|
|
(synopsis "Multivariate inference via the energy of data")
|
|
(description
|
|
"This package provides e-statistics (energy) tests and statistics for
|
|
multivariate and univariate inference, including distance correlation,
|
|
one-sample, two-sample, and multi-sample tests for comparing multivariate
|
|
distributions, are implemented. Measuring and testing multivariate
|
|
independence based on distance correlation, partial distance correlation,
|
|
multivariate goodness-of-fit tests, clustering based on energy distance,
|
|
testing for multivariate normality, distance components (disco) for
|
|
non-parametric analysis of structured data, and other energy
|
|
statistics/methods are implemented.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-suppdists
|
|
(package
|
|
(name "r-suppdists")
|
|
(version "1.1-9.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "SuppDists" version))
|
|
(sha256
|
|
(base32
|
|
"1ffx8wigqqvz2pnh06jjc0fnf4vq9z2rhwk2y3f9aszn18ap3dgw"))))
|
|
(properties `((upstream-name . "SuppDists")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/SuppDists")
|
|
(synopsis "Supplementary distributions")
|
|
(description
|
|
"This package provides ten distributions supplementing those built into
|
|
R. Inverse Gauss, Kruskal-Wallis, Kendall's Tau, Friedman's chi squared,
|
|
Spearman's rho, maximum F ratio, the Pearson product moment correlation
|
|
coefficient, Johnson distributions, normal scores and generalized
|
|
hypergeometric distributions. In addition two random number generators of
|
|
George Marsaglia are included.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ksamples
|
|
(package
|
|
(name "r-ksamples")
|
|
(version "1.2-8")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "kSamples" version))
|
|
(sha256
|
|
(base32
|
|
"15d5q5vpp4wx5rk5kjxjdxpwc8mkq5sbdz8gi07iscrvhzb5rzfr"))))
|
|
(properties `((upstream-name . "kSamples")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-suppdists" ,r-suppdists)))
|
|
(home-page "https://cran.r-project.org/web/packages/kSamples")
|
|
(synopsis "K-Sample rank tests and their combinations")
|
|
(description
|
|
"This package provides tools to compares k samples using the
|
|
Anderson-Darling test, Kruskal-Wallis type tests with different rank score
|
|
criteria, Steel's multiple comparison test, and the Jonckheere-Terpstra (JT)
|
|
test. It computes asymptotic, simulated or (limited) exact P-values, all
|
|
valid under randomization, with or without ties, or conditionally under random
|
|
sampling from populations, given the observed tie pattern. Except for Steel's
|
|
test and the JT test it also combines these tests across several blocks of
|
|
samples.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-cvst
|
|
(package
|
|
(name "r-cvst")
|
|
(version "0.2-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "CVST" version))
|
|
(sha256
|
|
(base32
|
|
"05l3yzkfrbds09ah9cdwn2sn4ryhq78lz33ryzrgkv176jc8qjw5"))))
|
|
(properties `((upstream-name . "CVST")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-kernlab" ,r-kernlab)
|
|
("r-matrix" ,r-matrix)))
|
|
(home-page "https://cran.r-project.org/web/packages/CVST")
|
|
(synopsis "Fast cross-validation via sequential testing")
|
|
(description
|
|
"This package implements the fast cross-validation via sequential
|
|
testing (CVST) procedure. CVST is an improved cross-validation procedure
|
|
which uses non-parametric testing coupled with sequential analysis to
|
|
determine the best parameter set on linearly increasing subsets of the data.
|
|
Additionally to the CVST the package contains an implementation of the
|
|
ordinary k-fold cross-validation with a flexible and powerful set of helper
|
|
objects and methods to handle the overall model selection process. The
|
|
implementations of the Cochran's Q test with permutations and the sequential
|
|
testing framework of Wald are generic and can therefore also be used in other
|
|
contexts.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-squarem
|
|
(package
|
|
(name "r-squarem")
|
|
(version "2017.10-1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "SQUAREM" version))
|
|
(sha256
|
|
(base32
|
|
"10xj26x7qjyvzndnbjl5krr9wabnb9cbrnp3m7xg673g8ddr12cv"))))
|
|
(properties `((upstream-name . "SQUAREM")))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.jhsph.edu/agingandhealth/People/Faculty_personal_pages/Varadhan.html")
|
|
(synopsis "Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms")
|
|
(description
|
|
"This package provides algorithms for accelerating the convergence of
|
|
slow, monotone sequences from smooth, contraction mapping such as the EM
|
|
algorithm. It can be used to accelerate any smooth, linearly convergent
|
|
acceleration scheme. A tutorial style introduction to this package is
|
|
available in a vignette.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-lava
|
|
(package
|
|
(name "r-lava")
|
|
(version "1.6.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "lava" version))
|
|
(sha256
|
|
(base32
|
|
"0cayjspry3r2lcbvl77v5v52b2zarri3b8xsf87pw5a3jn9anxcf"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-numderiv" ,r-numderiv)
|
|
("r-squarem" ,r-squarem)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "https://github.com/kkholst/lava")
|
|
(synopsis "Latent variable models")
|
|
(description
|
|
"This package provides tools for the estimation and simulation of latent
|
|
variable models.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-drr
|
|
(package
|
|
(name "r-drr")
|
|
(version "0.0.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "DRR" version))
|
|
(sha256
|
|
(base32
|
|
"1yd1fvllfkcrwg9v322n4wkk4q4q84nvy58y4vac9pdr3yf3i4vl"))))
|
|
(properties `((upstream-name . "DRR")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-cvst" ,r-cvst)
|
|
("r-kernlab" ,r-kernlab)
|
|
("r-matrix" ,r-matrix)))
|
|
(home-page "https://cran.r-project.org/web/packages/DRR")
|
|
(synopsis "Dimensionality reduction via regression")
|
|
(description
|
|
"This package provides an implementation of dimensionality reduction via
|
|
regression using Kernel Ridge Regression.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-prodlim
|
|
(package
|
|
(name "r-prodlim")
|
|
(version "2018.04.18")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "prodlim" version))
|
|
(sha256
|
|
(base32
|
|
"1aslq87sqwikh8chxc378r38146y7kv79zz0kcq3j93ivx7va8jb"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-kernsmooth" ,r-kernsmooth)
|
|
("r-lava" ,r-lava)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "https://cran.r-project.org/web/packages/prodlim")
|
|
(synopsis "Product-limit estimation for censored event history analysis")
|
|
(description
|
|
"This package provides a fast and user-friendly implementation of
|
|
nonparametric estimators for censored event history (survival) analysis with
|
|
the Kaplan-Meier and Aalen-Johansen methods.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-dimred
|
|
(package
|
|
(name "r-dimred")
|
|
(version "0.1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "dimRed" version))
|
|
(sha256
|
|
(base32
|
|
"0fasca5fsbrxdwv30hch7vb9snb844l7l8p5fjf239dq45xfy37v"))))
|
|
(properties `((upstream-name . "dimRed")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-drr" ,r-drr)))
|
|
(home-page "https://github.com/gdkrmr/dimRed")
|
|
(synopsis "Framework for dimensionality reduction")
|
|
(description
|
|
"This package provides a collection of dimensionality reduction
|
|
techniques from R packages and provides a common interface for calling the
|
|
methods.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-timedate
|
|
(package
|
|
(name "r-timedate")
|
|
(version "3043.102")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "timeDate" version))
|
|
(sha256
|
|
(base32
|
|
"0wvl5pq261rvbgly7vilk3x3m9xk3ly6il1i5scwdf6srl1vlz1p"))))
|
|
(properties `((upstream-name . "timeDate")))
|
|
(build-system r-build-system)
|
|
(home-page "https://www.rmetrics.org")
|
|
(synopsis "Chronological and calendar objects")
|
|
(description
|
|
"This package provides an environment for teaching \"Financial
|
|
Engineering and Computational Finance\" and for managing chronological and
|
|
calendar objects.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-magic
|
|
(package
|
|
(name "r-magic")
|
|
(version "1.5-8")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "magic" version))
|
|
(sha256
|
|
(base32
|
|
"083cgpp3v03li0h8597b3g21pd9lkbmn9pyssblnhc800mpc52vz"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-abind" ,r-abind)))
|
|
(home-page "https://github.com/RobinHankin/magic.git")
|
|
(synopsis "Create and investigate magic squares")
|
|
(description
|
|
"This package provides a collection of efficient, vectorized algorithms
|
|
for the creation and investigation of magic squares and hypercubes, including
|
|
a variety of functions for the manipulation and analysis of arbitrarily
|
|
dimensioned arrays.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-geometry
|
|
(package
|
|
(name "r-geometry")
|
|
(version "0.3-6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "geometry" version))
|
|
(sha256
|
|
(base32
|
|
"0s09vi0rr0smys3an83mz6fk41bplxyz4myrbiinf4qpk6n33qib"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-magic" ,r-magic)))
|
|
(home-page "http://geometry.r-forge.r-project.org/")
|
|
(synopsis "Mesh generation and surface tesselation")
|
|
(description
|
|
"This package makes the qhull library available in R, in a similar manner
|
|
as in Octave. Qhull computes convex hulls, Delaunay triangulations, halfspace
|
|
intersections about a point, Voronoi diagrams, furthest-site Delaunay
|
|
triangulations, and furthest-site Voronoi diagrams. It runs in 2-d, 3-d, 4-d,
|
|
and higher dimensions. It implements the Quickhull algorithm for computing
|
|
the convex hull. Qhull does not support constrained Delaunay triangulations,
|
|
or mesh generation of non-convex objects, but the package does include some R
|
|
functions that allow for this. Currently the package only gives access to
|
|
Delaunay triangulation and convex hull computation.")
|
|
;; The Qhull sources are included and are distributed under a custom
|
|
;; non-copyleft license. The R sources are released under GPL version 2.
|
|
(license (list license:gpl2
|
|
(license:non-copyleft "http://www.qhull.org/COPYING.txt")))))
|
|
|
|
(define-public r-ddalpha
|
|
(package
|
|
(name "r-ddalpha")
|
|
(version "1.3.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ddalpha" version))
|
|
(sha256
|
|
(base32
|
|
"16cn0bhbaz9l9k4y79sv2d4f7pvs7dyka273y89igs5jvr99kfj1"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-bh" ,r-bh)
|
|
("r-class" ,r-class)
|
|
("r-geometry" ,r-geometry)
|
|
("r-mass" ,r-mass)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-robustbase" ,r-robustbase)
|
|
("r-sfsmisc" ,r-sfsmisc)))
|
|
(native-inputs
|
|
`(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/ddalpha")
|
|
(synopsis "Depth-Based classification and calculation of data depth")
|
|
(description
|
|
"This package contains procedures for depth-based supervised learning,
|
|
which are entirely non-parametric, in particular the DDalpha-procedure (Lange,
|
|
Mosler and Mozharovskyi, 2014). The training data sample is transformed by a
|
|
statistical depth function to a compact low-dimensional space, where the final
|
|
classification is done. It also offers an extension to functional data and
|
|
routines for calculating certain notions of statistical depth functions. 50
|
|
multivariate and 5 functional classification problems are included.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-gower
|
|
(package
|
|
(name "r-gower")
|
|
(version "0.1.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "gower" version))
|
|
(sha256
|
|
(base32
|
|
"1mbrj1lam3jfbby2j32shmmj5cn09zx3rkxbamq7q8sdg39b54gb"))))
|
|
(build-system r-build-system)
|
|
(native-inputs
|
|
`(("r-knitr" ,r-knitr)))
|
|
(home-page "https://github.com/markvanderloo/gower")
|
|
(synopsis "Gower's distance")
|
|
(description
|
|
"This package provides tools to compute Gower's distance (or similarity)
|
|
coefficient between records, and to compute the top-n matches between records.
|
|
Core algorithms are executed in parallel on systems supporting OpenMP.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-rcpproll
|
|
(package
|
|
(name "r-rcpproll")
|
|
(version "0.3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "RcppRoll" version))
|
|
(sha256
|
|
(base32
|
|
"0srzfhzkk42kzrdjnhbb37946jp1p688rgysy6k3i2is8jb21zyb"))))
|
|
(properties `((upstream-name . "RcppRoll")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://cran.r-project.org/web/packages/RcppRoll")
|
|
(synopsis "Efficient rolling and windowed operations")
|
|
(description
|
|
"This package provides fast and efficient routines for common rolling /
|
|
windowed operations. Routines for the efficient computation of windowed mean,
|
|
median, sum, product, minimum, maximum, standard deviation and variance are
|
|
provided.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ipred
|
|
(package
|
|
(name "r-ipred")
|
|
(version "0.9-7")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ipred" version))
|
|
(sha256
|
|
(base32
|
|
"0q53cqs46501wsd4cmfsmr78l8nv1hkbamk9m0ns5qy02df5r254"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-class" ,r-class)
|
|
("r-mass" ,r-mass)
|
|
("r-nnet" ,r-nnet)
|
|
("r-prodlim" ,r-prodlim)
|
|
("r-rpart" ,r-rpart)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "https://cran.r-project.org/web/packages/ipred")
|
|
(synopsis "Improved predictors")
|
|
(description
|
|
"This package provides improved predictive models by indirect
|
|
classification and bagging for classification, regression and survival
|
|
problems as well as resampling based estimators of prediction error.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-psych
|
|
(package
|
|
(name "r-psych")
|
|
(version "1.8.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "psych" version))
|
|
(sha256
|
|
(base32
|
|
"1kzv9nc7rwn1sj1zxd8xrbs6c7qlka7j2c8lsr4f20znkd3qx8gf"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-foreign" ,r-foreign)
|
|
("r-lattice" ,r-lattice)
|
|
("r-mnormt" ,r-mnormt)
|
|
("r-nlme" ,r-nlme)))
|
|
(home-page "https://cran.r-project.org/web/packages/psych/")
|
|
(synopsis "Procedures for psychological, psychometric, and personality research")
|
|
(description
|
|
"This package provides a general purpose toolbox for personality,
|
|
psychometric theory and experimental psychology. Functions are primarily for
|
|
multivariate analysis and scale construction using factor analysis, principal
|
|
component analysis, cluster analysis and reliability analysis, although others
|
|
provide basic descriptive statistics. Item Response Theory is done using
|
|
factor analysis of tetrachoric and polychoric correlations. Functions for
|
|
analyzing data at multiple levels include within and between group statistics,
|
|
including correlations and factor analysis. Functions for simulating and
|
|
testing particular item and test structures are included. Several functions
|
|
serve as a useful front end for structural equation modeling. Graphical
|
|
displays of path diagrams, factor analysis and structural equation models are
|
|
created using basic graphics.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-broom
|
|
(package
|
|
(name "r-broom")
|
|
(version "0.5.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "broom" version))
|
|
(sha256
|
|
(base32
|
|
"1r3831vq0fd5sh5841xr844sghg88z7ws91hg4jgnzbbkxfjp4ag"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-backports" ,r-backports)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-nlme" ,r-nlme)
|
|
("r-purrr" ,r-purrr)
|
|
("r-reshape2" ,r-reshape2)
|
|
("r-stringr" ,r-stringr)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyr" ,r-tidyr)))
|
|
(home-page "https://github.com/tidyverse/broom")
|
|
(synopsis "Convert statistical analysis objects into tidy data frames")
|
|
(description
|
|
"This package provides tools to convert statistical analysis objects from
|
|
R into tidy data frames, so that they can more easily be combined, reshaped
|
|
and otherwise processed with tools like @code{dplyr}, @code{tidyr} and
|
|
@code{ggplot2}. The package provides three S3 generics: @code{tidy}, which
|
|
summarizes a model's statistical findings such as coefficients of a
|
|
regression; @code{augment}, which adds columns to the original data such as
|
|
predictions, residuals and cluster assignments; and @code{glance}, which
|
|
provides a one-row summary of model-level statistics.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-recipes
|
|
(package
|
|
(name "r-recipes")
|
|
(version "0.1.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "recipes" version))
|
|
(sha256
|
|
(base32
|
|
"1vqh3pxs4n1azhnd1lzg91vasya6g323kllhbrw177j7kdxqyimy"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-broom" ,r-broom)
|
|
("r-ddalpha" ,r-ddalpha)
|
|
("r-dimred" ,r-dimred)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-gower" ,r-gower)
|
|
("r-ipred" ,r-ipred)
|
|
("r-lubridate" ,r-lubridate)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-matrix" ,r-matrix)
|
|
("r-pls" ,r-pls)
|
|
("r-purrr" ,r-purrr)
|
|
("r-rcpproll" ,r-rcpproll)
|
|
("r-rlang" ,r-rlang)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyselect" ,r-tidyselect)
|
|
("r-timedate" ,r-timedate)))
|
|
(home-page "https://github.com/topepo/recipes")
|
|
(synopsis "Preprocessing tools to create design matrices")
|
|
(description
|
|
"Recipes is an extensible framework to create and preprocess design
|
|
matrices. Recipes consist of one or more data manipulation and analysis
|
|
\"steps\". Statistical parameters for the steps can be estimated from an
|
|
initial data set and then applied to other data sets. The resulting design
|
|
matrices can then be used as inputs into statistical or machine learning
|
|
models.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-pdist
|
|
(package
|
|
(name "r-pdist")
|
|
(version "1.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pdist" version))
|
|
(sha256
|
|
(base32
|
|
"18nd3mgad11f2zmwcp0w3sxlch4a9y6wp8dfdyzvjn7y4b4bq0dd"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/jeffwong/pdist")
|
|
(synopsis "Partitioned distance function")
|
|
(description
|
|
"Pdist computes the euclidean distance between rows of a matrix X and
|
|
rows of another matrix Y. Previously, this could be done by binding the two
|
|
matrices together and calling @code{dist}, but this creates unnecessary
|
|
computation by computing the distances between a row of X and another row of
|
|
X, and likewise for Y. Pdist strictly computes distances across the two
|
|
matrices, not within the same matrix, making computations significantly faster
|
|
for certain use cases.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-ggrepel
|
|
(package
|
|
(name "r-ggrepel")
|
|
(version "0.8.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggrepel" version))
|
|
(sha256
|
|
(base32
|
|
"1m3p84d6nh9mzzvxb82vgig3ngcvkz86rjwzl9a66ckdf5p611k3"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-scales" ,r-scales)))
|
|
(home-page "http://github.com/slowkow/ggrepel")
|
|
(synopsis "Repulsive text and label geometries for ggplot2")
|
|
(description
|
|
"This package provides text and label geometries for ggplot2 that help to
|
|
avoid overlapping text labels. Labels repel away from each other and away
|
|
from the data points.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-corrplot
|
|
(package
|
|
(name "r-corrplot")
|
|
(version "0.84")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "corrplot" version))
|
|
(sha256
|
|
(base32
|
|
"1k03qd8db7pwg1v318xapx5mpiypiz2n07qr19c4b45diri5xkhd"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/taiyun/corrplot")
|
|
(synopsis "Visualization of a correlation matrix")
|
|
(description
|
|
"This package provides a graphical display of a correlation matrix or
|
|
general matrix. It also contains some algorithms to do matrix reordering. In
|
|
addition, corrplot is good at details, including choosing color, text labels,
|
|
color labels, layout, etc.")
|
|
;; Any version of the GPL
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-stringdist
|
|
(package
|
|
(name "r-stringdist")
|
|
(version "0.9.5.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "stringdist" version))
|
|
(sha256
|
|
(base32
|
|
"0gap1g9xwhp0zxqsznkc2carpvi80z03prr4q8m528684lznx2xa"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/markvanderloo/stringdist")
|
|
(synopsis "Approximate string matching and string distance functions")
|
|
(description
|
|
"This package implements an approximate string matching version of R's
|
|
native @code{match} function. It can calculate various string distances based
|
|
on edits (Damerau-Levenshtein, Hamming, Levenshtein, optimal sting alignment),
|
|
qgrams (q- gram, cosine, jaccard distance) or heuristic metrics (Jaro,
|
|
Jaro-Winkler). An implementation of soundex is provided as well. Distances
|
|
can be computed between character vectors while taking proper care of encoding
|
|
or between integer vectors representing generic sequences.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-ucminf
|
|
(package
|
|
(name "r-ucminf")
|
|
(version "1.1-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ucminf" version))
|
|
(sha256
|
|
(base32
|
|
"01vggwg1w71k98qs6fhb0x1843vi322mf4g3hbclks94kcpkisx2"))))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/ucminf/")
|
|
(synopsis "General-purpose unconstrained non-linear optimization")
|
|
(description
|
|
"This package provides an implementation of an algorithm for
|
|
general-purpose unconstrained non-linear optimization. The algorithm is of
|
|
quasi-Newton type with BFGS updating of the inverse Hessian and soft line
|
|
search with a trust region type monitoring of the input to the line search
|
|
algorithm. The interface of @code{ucminf} is designed for easy interchange
|
|
with the package @code{optim}.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ordinal
|
|
(package
|
|
(name "r-ordinal")
|
|
(version "2018.8-25")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ordinal" version))
|
|
(sha256
|
|
(base32
|
|
"03cv9hcrw8j3lhamzhz8sk2p3ns4cw9z41x49h301k2b3pajv43h"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-mass" ,r-mass)
|
|
("r-matrix" ,r-matrix)
|
|
("r-numderiv" ,r-numderiv)
|
|
("r-ucminf" ,r-ucminf)))
|
|
(home-page "https://github.com/runehaubo/ordinal")
|
|
(synopsis "Regression models for ordinal data")
|
|
(description
|
|
"This package provides an implementation of cumulative link (mixed)
|
|
models also known as ordered regression models, proportional odds models,
|
|
proportional hazards models for grouped survival times and ordered models.
|
|
Estimation is via maximum likelihood and mixed models are fitted with the
|
|
Laplace approximation and adaptive Gauss-Hermite quadrature.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-jomo
|
|
(package
|
|
(name "r-jomo")
|
|
(version "2.6-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "jomo" version))
|
|
(sha256
|
|
(base32
|
|
"05g2rj9g7rgyb22b0gybw042nydyqsqsb31v05hifzavri8ij01x"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-lme4" ,r-lme4)
|
|
("r-ordinal" ,r-ordinal)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "https://cran.r-project.org/web/packages/jomo/")
|
|
(synopsis "Multilevel Joint Modelling Multiple Imputation")
|
|
(description
|
|
"Similarly to Schafer's package pan, jomo is a package for multilevel
|
|
joint modelling multiple imputation @url{Carpenter and Kenward (2013),
|
|
http://doi.org/10.1002/9781119942283}. Novel aspects of jomo are the
|
|
possibility of handling binary and categorical data through latent normal
|
|
variables, the option to use cluster-specific covariance matrices and to
|
|
impute compatibly with the substantive model.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-pan
|
|
(package
|
|
(name "r-pan")
|
|
(version "1.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pan" version))
|
|
(sha256
|
|
(base32
|
|
"1dk3jjj826p7xrz10qz04vyc068xnypg7bp0pj4c32z3da0xzh5d"))))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/pan/")
|
|
(synopsis "Multiple imputation for multivariate panel or clustered data")
|
|
(description
|
|
"This package implements multiple imputation for multivariate panel or
|
|
clustered data.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-mitml
|
|
(package
|
|
(name "r-mitml")
|
|
(version "0.3-6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "mitml" version))
|
|
(sha256
|
|
(base32
|
|
"1pkqv4qazih3byws5z6629pp232n8ra56lip7502727b0b4bsndw"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-haven" ,r-haven)
|
|
("r-jomo" ,r-jomo)
|
|
("r-pan" ,r-pan)))
|
|
(home-page "https://cran.r-project.org/web/packages/mitml/")
|
|
(synopsis "Tools for multiple imputation in multilevel modeling")
|
|
(description
|
|
"This package provides tools for multiple imputation of missing data in
|
|
multilevel modeling. It includes a user-friendly interface to the packages
|
|
pan and jomo, and several functions for visualization, data management and the
|
|
analysis of multiply imputed data sets.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-mice
|
|
(package
|
|
(name "r-mice")
|
|
(version "3.3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "mice" version))
|
|
(sha256
|
|
(base32
|
|
"1p0ipbqk5aqdi7iikw3qrjyvdi9sdhpnw1h5mwakwvv0yl0pzbyx"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-broom" ,r-broom)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-lattice" ,r-lattice)
|
|
("r-mass" ,r-mass)
|
|
("r-mitml" ,r-mitml)
|
|
("r-nnet" ,r-nnet)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-rlang" ,r-rlang)
|
|
("r-rpart" ,r-rpart)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "https://cran.r-project.org/web/packages/mice/")
|
|
(synopsis "Multivariate imputation by chained equations")
|
|
(description
|
|
"Multiple imputation using @dfn{Fully Conditional Specification} (FCS)
|
|
implemented by the MICE algorithm as described in @url{Van Buuren and
|
|
Groothuis-Oudshoorn (2011), http://doi.org/10.18637/jss.v045.i03}. Each
|
|
variable has its own imputation model. Built-in imputation models are
|
|
provided for continuous data (predictive mean matching, normal), binary
|
|
data (logistic regression), unordered categorical data (polytomous logistic
|
|
regression) and ordered categorical data (proportional odds). MICE can also
|
|
impute continuous two-level data (normal model, pan, second-level variables).
|
|
Passive imputation can be used to maintain consistency between variables.
|
|
Various diagnostic plots are available to inspect the quality of the
|
|
imputations.")
|
|
;; Any of these two versions.
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-truncnorm
|
|
(package
|
|
(name "r-truncnorm")
|
|
(version "1.0-8")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "truncnorm" version))
|
|
(sha256
|
|
(base32
|
|
"0zn88wdd58223kibk085rhsikl4yhlrwiyq109hzjg06hy6lwmj9"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/truncnorm/")
|
|
(synopsis "Truncated normal distribution")
|
|
(description "This package provides functions for the truncated normal
|
|
distribution with mean equal to @code{mean} and standard deviation equal to
|
|
@code{sd}. It includes density, distribution, quantile, and expected value
|
|
functions, as well as a random generation function.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-rsolnp
|
|
(package
|
|
(name "r-rsolnp")
|
|
(version "1.16")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "Rsolnp" version))
|
|
(sha256
|
|
(base32
|
|
"0w7nkj6igr0gi7r7jg950lsx7dj6aipgxi6vbjsf5f5yc9h7fhii"))))
|
|
(properties `((upstream-name . "Rsolnp")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-truncnorm" ,r-truncnorm)))
|
|
(home-page "https://cran.r-project.org/web/packages/Rsolnp/")
|
|
(synopsis "General non-linear optimization")
|
|
(description "The Rsolnp package implements a general non-linear augmented
|
|
Lagrange multiplier method solver, a @dfn{sequential quadratic
|
|
programming} (SQP) based solver).")
|
|
;; Any version of the GPL.
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-hardyweinberg
|
|
(package
|
|
(name "r-hardyweinberg")
|
|
(version "1.6.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "HardyWeinberg" version))
|
|
(sha256
|
|
(base32
|
|
"16n8qanxx0p5ny5zqxafn8hwb1xv94y1wig1iql8as5a5qh8lwcz"))))
|
|
(properties `((upstream-name . "HardyWeinberg")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-mice" ,r-mice)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-rsolnp" ,r-rsolnp)))
|
|
(home-page "https://cran.r-project.org/package=HardyWeinberg")
|
|
(synopsis "Statistical tests and graphics for Hardy-Weinberg equilibrium")
|
|
(description
|
|
"This package contains tools for exploring Hardy-Weinberg equilibrium for
|
|
diallelic genetic marker data. All classical tests (chi-square, exact,
|
|
likelihood-ratio and permutation tests) for Hardy-Weinberg equilibrium are
|
|
included in the package, as well as functions for power computation and for
|
|
the simulation of marker data under equilibrium and disequilibrium. Routines
|
|
for dealing with markers on the X-chromosome are included. Functions for
|
|
testing equilibrium in the presence of missing data by using multiple
|
|
imputation are also provided. Implements several graphics for exploring the
|
|
equilibrium status of a large set of diallelic markers: ternary plots with
|
|
acceptance regions, log-ratio plots and Q-Q plots.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-sm
|
|
(package
|
|
(name "r-sm")
|
|
(version "2.2-5.5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sm" version))
|
|
(sha256
|
|
(base32
|
|
"1rw2mxygxsmk8mn4wag1ppjgzk0rlvh6zd8q02qrhjrn9jhi5qj3"))))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "http://www.stats.gla.ac.uk/~adrian/sm/")
|
|
(synopsis "Smoothing methods for nonparametric regression and density estimation")
|
|
(description
|
|
"This is software accompanying the book 'Applied Smoothing Techniques for
|
|
Data Analysis---The Kernel Approach with S-Plus Illustrations', Oxford
|
|
University Press. It provides smoothing methods for nonparametric regression
|
|
and density estimation")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-venndiagram
|
|
(package
|
|
(name "r-venndiagram")
|
|
(version "1.6.20")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "VennDiagram" version))
|
|
(sha256
|
|
(base32
|
|
"1ic1jaxzw98si2p4n1fl4n3myhd7fpw0njb634cwhviwybzv6775"))))
|
|
(properties `((upstream-name . "VennDiagram")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-futile-logger" ,r-futile-logger)))
|
|
(home-page "https://cran.r-project.org/web/packages/VennDiagram/")
|
|
(synopsis "Generate High-Resolution Venn and Euler Plots")
|
|
(description
|
|
"This package provides a set of functions to generate high-resolution
|
|
Venn and Euler plots. It includes handling for several special cases,
|
|
including two-case scaling, and extensive customization of plot shape and
|
|
structure.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-vioplot
|
|
(package
|
|
(name "r-vioplot")
|
|
(version "0.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "vioplot" version))
|
|
(sha256
|
|
(base32
|
|
"16wkb26kv6qr34hv5zgqmgq6zzgysg9i78pvy2c097lr60v087v0"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-sm" ,r-sm)))
|
|
(home-page "http://wsopuppenkiste.wiso.uni-goettingen.de/~dadler")
|
|
(synopsis "Violin plot")
|
|
(description
|
|
"This package provides a violin plot, which is a combination of a box
|
|
plot and a kernel density plot.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public r-rsofia
|
|
(package
|
|
(name "r-rsofia")
|
|
(version "1.1")
|
|
(source (origin
|
|
(method url-fetch)
|
|
;; This package has been removed from CRAN, so we can
|
|
;; only fetch it from the archives.
|
|
(uri (string-append "https://cran.r-project.org/src/"
|
|
"contrib/Archive/RSofia/RSofia_"
|
|
version ".tar.gz"))
|
|
(sha256
|
|
(base32
|
|
"0q931y9rcf6slb0s2lsxhgqrzy4yqwh8hb1124nxg0bjbxvjbihn"))))
|
|
(properties `((upstream-name . "RSofia")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://cran.r-project.org/src/contrib/Archive/RSofia")
|
|
(synopsis "Port of sofia-ml to R")
|
|
(description "This package is a port of sofia-ml to R. Sofia-ml is a
|
|
suite of fast incremental algorithms for machine learning that can be used for
|
|
training models for classification or ranking.")
|
|
(license license:asl2.0)))
|
|
|
|
(define-public r-xts
|
|
(package
|
|
(name "r-xts")
|
|
(version "0.11-0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "xts" version))
|
|
(sha256
|
|
(base32
|
|
"1v50yn4bsjzdyk7r90isn6dxmpkapillrhpx3gqsshd180vwzqk9"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-zoo" ,r-zoo)))
|
|
(home-page "https://github.com/joshuaulrich/xts")
|
|
(synopsis "Extensible time series")
|
|
(description
|
|
"This package provides for uniform handling of R's different time-based
|
|
data classes by extending @code{zoo}, maximizing native format information
|
|
preservation and allowing for user-level customization and extension, while
|
|
simplifying cross-class interoperability.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-performanceanalytics
|
|
(package
|
|
(name "r-performanceanalytics")
|
|
(version "1.5.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "PerformanceAnalytics" version))
|
|
(sha256
|
|
(base32
|
|
"01bgm57z079g6r505w3bj293zkbd49fwa8sg55z87vizwavipml6"))))
|
|
(properties
|
|
`((upstream-name . "PerformanceAnalytics")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-quadprog" ,r-quadprog)
|
|
("r-xts" ,r-xts)
|
|
("r-zoo" ,r-zoo)))
|
|
(home-page "https://r-forge.r-project.org/projects/returnanalytics/")
|
|
(synopsis "Econometric tools for performance and risk analysis")
|
|
(description "This is a collection of econometric functions for
|
|
performance and risk analysis. This package aims to aid practitioners and
|
|
researchers in utilizing the latest research in analysis of non-normal return
|
|
streams. In general, it is most tested on return (rather than price) data on
|
|
a regular scale, but most functions will work with irregular return data as
|
|
well, and increasing numbers of functions will work with P&L or price data
|
|
where possible.")
|
|
;; Either version may be picked.
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-laeken
|
|
(package
|
|
(name "r-laeken")
|
|
(version "0.4.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "laeken" version))
|
|
(sha256
|
|
(base32
|
|
"1rhkv1kk508pwln1d325iq4fink2ncssps0ypxi52j9d7wk78la6"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-boot" ,r-boot)
|
|
("r-mass" ,r-mass)))
|
|
(home-page "https://cran.r-project.org/web/packages/laeken/")
|
|
(synopsis "Estimation of indicators on social exclusion and poverty")
|
|
(description "This package provides tools for the estimation of indicators
|
|
on social exclusion and poverty, as well as an implementation of Pareto tail
|
|
modeling for empirical income distributions.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-vcd
|
|
(package
|
|
(name "r-vcd")
|
|
(version "1.4-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "vcd" version))
|
|
(sha256
|
|
(base32
|
|
"1lp99h0wvsc61l1dgcqjxdrcgpgw88ak430cdsv43kmm43qssqd5"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-colorspace" ,r-colorspace)
|
|
("r-lmtest" ,r-lmtest)
|
|
("r-mass" ,r-mass)))
|
|
(home-page "https://cran.r-project.org/web/packages/vcd/")
|
|
(synopsis "Visualizing categorical data")
|
|
(description "This package provides visualization techniques, data sets,
|
|
summary and inference procedures aimed particularly at categorical data.
|
|
Special emphasis is given to highly extensible grid graphics. The package was
|
|
originally inspired by the book \"Visualizing Categorical Data\" by Michael
|
|
Friendly and is now the main support package for a new book, \"Discrete Data
|
|
Analysis with R\" by Michael Friendly and David Meyer (2015).")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ica
|
|
(package
|
|
(name "r-ica")
|
|
(version "1.0-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ica" version))
|
|
(sha256
|
|
(base32
|
|
"0ya1nph1zwhad0bfz4yxs27kl45yk1dhnphdlrq34p8pqrpmj8g7"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/ica/")
|
|
(synopsis "Independent component analysis")
|
|
(description "This package provides tools for @dfn{Independent Component
|
|
Analysis} (ICA) using various algorithms: FastICA,
|
|
Information-Maximization (Infomax), and @dfn{Joint Approximate Diagonalization
|
|
of Eigenmatrices} (JADE).")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-dtw
|
|
(package
|
|
(name "r-dtw")
|
|
(version "1.20-1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "dtw" version))
|
|
(sha256
|
|
(base32
|
|
"1w301xwizncy5r8v9rwwdxfshydgp3l1pnjla1fjn6n8lx3imjj3"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-proxy" ,r-proxy)))
|
|
(home-page "http://dtw.r-forge.r-project.org/")
|
|
(synopsis "Dynamic Time Warping Algorithms")
|
|
(description "This package provides a comprehensive implementation of
|
|
@dfn{dynamic time warping} (DTW) algorithms in R. DTW computes the
|
|
optimal (least cumulative distance) alignment between points of two time
|
|
series. Common DTW variants covered include local (slope) and global (window)
|
|
constraints, subsequence matches, arbitrary distance definitions,
|
|
normalizations, minimum variance matching, and so on.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-sdmtools
|
|
(package
|
|
(name "r-sdmtools")
|
|
(version "1.1-221")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "SDMTools" version))
|
|
(sha256
|
|
(base32
|
|
"1kacrpamshv7wz83yn45sfbw4m9c44xrrngzcklnwx8gcxx2knm6"))))
|
|
(properties `((upstream-name . "SDMTools")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-r-utils" ,r-r-utils)))
|
|
(home-page "http://www.rforge.net/SDMTools/")
|
|
(synopsis "Species distribution modelling tools")
|
|
(description "This packages provides a set of tools for post processing
|
|
the outcomes of species distribution modeling exercises. It includes novel
|
|
methods for comparing models and tracking changes in distributions through
|
|
time. It further includes methods for visualizing outcomes, selecting
|
|
thresholds, calculating measures of accuracy and landscape fragmentation
|
|
statistics, etc.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-scatterplot3d
|
|
(package
|
|
(name "r-scatterplot3d")
|
|
(version "0.3-41")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "scatterplot3d" version))
|
|
(sha256
|
|
(base32
|
|
"152xqz9c70qab86mpgng049gxsg5f4fpf1m8dh93fb9v1avjd0sc"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/scatterplot3d/")
|
|
(synopsis "3D scatter plot")
|
|
(description "This package provides an implementation of scatter plots for
|
|
plotting. a three dimensional point cloud.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ggridges
|
|
(package
|
|
(name "r-ggridges")
|
|
(version "0.5.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggridges" version))
|
|
(sha256
|
|
(base32
|
|
"1znvsbl3px8dddpjgdrygnpz4s685wizi0jnjvx2hrz58i0chjqj"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-plyr" ,r-plyr)
|
|
("r-scales" ,r-scales)
|
|
("r-withr" ,r-withr)))
|
|
(home-page "https://github.com/clauswilke/ggridges")
|
|
(synopsis "Ridgeline plots in ggplot2")
|
|
(description
|
|
"Ridgeline plots provide a convenient way of visualizing changes in
|
|
distributions over time or space. This package enables the creation of such
|
|
plots in @code{ggplot2}.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ggjoy
|
|
(package
|
|
(name "r-ggjoy")
|
|
(version "0.4.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggjoy" version))
|
|
(sha256
|
|
(base32
|
|
"012md2m0jqfcccb933j423m3ck31v3p0pd41gjxpyg9082y7ixyj"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-ggridges" ,r-ggridges)))
|
|
(home-page "https://github.com/clauswilke/ggjoy")
|
|
(synopsis "Joyplots in ggplot2")
|
|
(description "Joyplots provide a convenient way of visualizing changes in
|
|
distributions over time or space. This package enables the creation of such
|
|
plots in @code{ggplot2}.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-cli
|
|
(package
|
|
(name "r-cli")
|
|
(version "1.0.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "cli" version))
|
|
(sha256
|
|
(base32
|
|
"07as3dr7vwx02p3qgzlmxz1dlrd3x3lysrzp222ip9jcjpydp8wg"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-assertthat" ,r-assertthat)
|
|
("r-crayon" ,r-crayon)))
|
|
(home-page "https://github.com/r-lib/cli#readme")
|
|
(synopsis "Helpers for developing command line interfaces")
|
|
(description "This package provides a suite of tools designed to build
|
|
attractive command line interfaces (CLIs). It includes tools for drawing
|
|
rules, boxes, trees, and Unicode symbols with ASCII alternatives.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-argparser
|
|
(package
|
|
(name "r-argparser")
|
|
(version "0.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "argparser" version))
|
|
(sha256
|
|
(base32
|
|
"0s1wxshx4jk69wfxhycx973q6y8cmqrfymyjklhq1i8xrj0kmmx9"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://bitbucket.org/djhshih/argparser")
|
|
(synopsis "Command-line argument parser")
|
|
(description
|
|
"This package provides a cross-platform command-line argument parser
|
|
written purely in R with no external dependencies. It is useful with the
|
|
Rscript front-end and facilitates turning an R script into an executable
|
|
script.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-debugme
|
|
(package
|
|
(name "r-debugme")
|
|
(version "1.1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "debugme" version))
|
|
(sha256
|
|
(base32
|
|
"1c9sg55zvf10h8198jdnpamm6f66lzw3c3jnmdp9ls6na0j0xbjd"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-crayon" ,r-crayon)))
|
|
(home-page "https://github.com/r-lib/debugme#readme")
|
|
(synopsis "Debug R packages")
|
|
(description
|
|
"This package allows the user to specify debug messages as special string
|
|
constants, and control debugging of packages via environment variables.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-processx
|
|
(package
|
|
(name "r-processx")
|
|
(version "3.2.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "processx" version))
|
|
(sha256
|
|
(base32
|
|
"1pzx4ap4xa07gf9zkd6hacdsnb9sp3kb60a7v7ljl0ywrcpn1fn4"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-assertthat" ,r-assertthat)
|
|
("r-crayon" ,r-crayon)
|
|
("r-ps" ,r-ps)
|
|
("r-r6" ,r-r6)
|
|
("r-testthat" ,r-testthat)))
|
|
(home-page "https://github.com/r-lib/processx3")
|
|
(synopsis "Execute and control system processes")
|
|
(description
|
|
"This package provides portable tools to run system processes in the
|
|
background. It can check if a background process is running; wait on a
|
|
background process to finish; get the exit status of finished processes; kill
|
|
background processes and their children; restart processes. It can read the
|
|
standard output and error of the processes, using non-blocking connections.
|
|
@code{processx} can poll a process for standard output or error, with a
|
|
timeout. It can also poll several processes at once.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-tsp
|
|
(package
|
|
(name "r-tsp")
|
|
(version "1.1-6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "TSP" version))
|
|
(sha256
|
|
(base32
|
|
"1ym97xl2icjpfkrici0wig29w06bb704hp51v7h5liygjlwpkhlc"))))
|
|
(properties `((upstream-name . "TSP")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-foreach" ,r-foreach)))
|
|
(home-page "https://cran.r-project.org/web/packages/TSP/")
|
|
(synopsis "Traveling salesperson problem (TSP)")
|
|
(description "This package provides basic infrastructure and some
|
|
algorithms for the @dfn{traveling salesperson problem}(TSP) (also known as the
|
|
traveling salesman problem).")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-qap
|
|
(package
|
|
(name "r-qap")
|
|
(version "0.1-1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "qap" version))
|
|
(sha256
|
|
(base32
|
|
"0d2d1ni1camixyi45lfy00f4pn3p063k7bsi8gj5scp6n15mdgb0"))))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/qap/")
|
|
(synopsis "Heuristics for the quadratic assignment problem (QAP)")
|
|
(description "This package implements heuristics for the @dfn{quadratic
|
|
assignment problem} (QAP). Currently only a simulated annealing heuristic is
|
|
available.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-gclus
|
|
(package
|
|
(name "r-gclus")
|
|
(version "1.3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "gclus" version))
|
|
(sha256
|
|
(base32
|
|
"02ba6zj9bjwrzykamjp40ajynx9xjx9h2i85n0ym0r5lcki4x6fn"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-cluster" ,r-cluster)))
|
|
(home-page "https://cran.r-project.org/web/packages/gclus/")
|
|
(synopsis "Clustering graphics")
|
|
(description "This package orders panels in scatterplot matrices and
|
|
parallel coordinate displays by some merit index. It contains various indices
|
|
of merit, ordering functions, and enhanced versions of @code{pairs} and
|
|
@code{parcoord} which color panels according to their merit level.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-webshot
|
|
(package
|
|
(name "r-webshot")
|
|
(version "0.5.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "webshot" version))
|
|
(sha256
|
|
(base32
|
|
"07r71zzmggp4jf92x4ws4wg6v1x98vaj01lsar85bnb30n5vx8gh"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-jsonlite" ,r-jsonlite)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-processx" ,r-processx)
|
|
("r-withr" ,r-withr)))
|
|
(home-page "https://github.com/wch/webshot/")
|
|
(synopsis "Take screenshots of web pages")
|
|
(description
|
|
"Webshot makes it easy to take screenshots of web pages from within R.
|
|
It can also run Shiny applications locally and take screenshots of the
|
|
application; and it can render and screenshot static as well as interactive R
|
|
Markdown documents.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-seriation
|
|
(package
|
|
(name "r-seriation")
|
|
(version "1.2-3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "seriation" version))
|
|
(sha256
|
|
(base32
|
|
"1q6hw4hjw224b4y0dc0j630v2pgj6sn455nwkilb70w8k31hpk92"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-cluster" ,r-cluster)
|
|
("r-colorspace" ,r-colorspace)
|
|
("r-dendextend" ,r-dendextend)
|
|
("r-gclus" ,r-gclus)
|
|
("r-gplots" ,r-gplots)
|
|
("r-mass" ,r-mass)
|
|
("r-qap" ,r-qap)
|
|
("r-registry" ,r-registry)
|
|
("r-tsp" ,r-tsp)))
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "http://s2.smu.edu/IDA/seriation/")
|
|
(synopsis "Infrastructure for ordering objects using seriation")
|
|
(description
|
|
"This package provides infrastructure for seriation with an
|
|
implementation of several seriation/sequencing techniques to reorder matrices,
|
|
dissimilarity matrices, and dendrograms. It also provides (optimally)
|
|
reordered heatmaps, color images and clustering visualizations like
|
|
dissimilarity plots, and visual assessment of cluster tendency plots (VAT and
|
|
iVAT).")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-xfun
|
|
(package
|
|
(name "r-xfun")
|
|
(version "0.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "xfun" version))
|
|
(sha256
|
|
(base32
|
|
"1r11dd49ngmjgbjdv28a9c1jp8cg1l50x0acbsamzz576p8i2wl9"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/yihui/xfun")
|
|
(synopsis "Miscellaneous functions")
|
|
(description
|
|
"This package provides miscellaneous functions commonly used in other
|
|
packages maintained by Yihui Xie.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-utf8
|
|
(package
|
|
(name "r-utf8")
|
|
(version "1.1.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "utf8" version))
|
|
(sha256
|
|
(base32
|
|
"0m0ywg8k3blfiahxvh1i4zn9dksrlc937d2lbza5fc38zjnrrnpn"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/patperry/r-utf8")
|
|
(synopsis "Unicode text processing")
|
|
(description
|
|
"This package provides tools to process and print UTF-8 encoded
|
|
international text (Unicode). Input, validate, normalize, encode, format, and
|
|
display.")
|
|
(license license:asl2.0)))
|
|
|
|
(define-public r-pillar
|
|
(package
|
|
(name "r-pillar")
|
|
(version "1.3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pillar" version))
|
|
(sha256
|
|
(base32
|
|
"1q6arybmfqxhp5zqj1fri5pb8v7ywcv7bmgf81rrmgl892p4bn5f"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-cli" ,r-cli)
|
|
("r-crayon" ,r-crayon)
|
|
("r-fansi" ,r-fansi)
|
|
("r-rlang" ,r-rlang)
|
|
("r-utf8" ,r-utf8)))
|
|
(home-page "https://github.com/r-lib/pillar")
|
|
(synopsis "Coloured formatting for columns")
|
|
(description
|
|
"This package provides a @code{pillar} generic designed for formatting
|
|
columns of data using the full range of colours provided by modern
|
|
terminals.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-uuid
|
|
(package
|
|
(name "r-uuid")
|
|
(version "0.1-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "uuid" version))
|
|
(sha256
|
|
(base32
|
|
"1gmisd630fc8ybg845hbg13wmm3pk3npaamrh5wqbc1nqd6p0wfx"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.rforge.net/uuid")
|
|
(synopsis "Tools for generating and handling of UUIDs")
|
|
(description
|
|
"This package provides tools for generating and handling of
|
|
@dfn{Universally Unique Identifiers} (UUIDs).")
|
|
(license license:expat)))
|
|
|
|
(define-public r-tinytex
|
|
(package
|
|
(name "r-tinytex")
|
|
(version "0.8")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "tinytex" version))
|
|
(sha256
|
|
(base32
|
|
"1bgpr5i5399jf9n6pg2mm4aamisbhppg082ad0wv1j4g0rlxf1gy"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-xfun" ,r-xfun)))
|
|
(home-page "https://github.com/yihui/tinytex")
|
|
(synopsis "Helper functions for TeX Live and compiling LaTeX documents")
|
|
(description
|
|
"This package provides helper functions to install and maintain the LaTeX
|
|
distribution named TinyTeX, a lightweight, cross-platform, portable, and
|
|
easy-to-maintain version of TeX Live. This package also contains helper
|
|
functions to compile LaTeX documents, and install missing LaTeX packages
|
|
automatically.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-metap
|
|
(package
|
|
(name "r-metap")
|
|
(version "1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "metap" version))
|
|
(sha256
|
|
(base32
|
|
"18rzvqfzyk8fn54gjvy2qd21nk9w69j7ihww477ma3f3ab6i982h"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-lattice" ,r-lattice)
|
|
("r-rdpack" ,r-rdpack)))
|
|
(home-page "http://www.dewey.myzen.co.uk/meta/meta.html")
|
|
(synopsis "Meta-analysis of significance values")
|
|
(description
|
|
"The canonical way to perform meta-analysis involves using effect sizes.
|
|
When they are not available this package provides a number of methods for
|
|
meta-analysis of significance values including the methods of Edgington,
|
|
Fisher, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate
|
|
published results; and a routine for graphical display.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-network
|
|
(package
|
|
(name "r-network")
|
|
(version "1.13.0.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "network" version))
|
|
(sha256
|
|
(base32
|
|
"1bbkbqkqf1d7irfwh08c13c2pfypir1ssvlqrln83irqns1ikdv0"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://statnet.org/")
|
|
(synopsis "Classes for relational data")
|
|
(description
|
|
"This package provides tools to create and modify network objects. The
|
|
@code{network} class can represent a range of relational data types, and
|
|
supports arbitrary vertex/edge/graph attributes.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-statnet-common
|
|
(package
|
|
(name "r-statnet-common")
|
|
(version "4.1.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "statnet.common" version))
|
|
(sha256
|
|
(base32
|
|
"14dydm4c4dzc4v6ldxpn04q551nczzfablwibrd8lzgja8x9ksic"))))
|
|
(properties
|
|
`((upstream-name . "statnet.common")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-coda" ,r-coda)))
|
|
(home-page "https://statnet.org")
|
|
(synopsis "R scripts and utilities used by the Statnet software")
|
|
(description "This package provides non-statistical utilities used by the
|
|
software developed by the Statnet Project.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-sna
|
|
(package
|
|
(name "r-sna")
|
|
(version "2.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sna" version))
|
|
(sha256
|
|
(base32
|
|
"1ks8819qvpdfansfqj9p32s1rhvl26frvbi78m4rx1wd1qcv74i2"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-network" ,r-network)
|
|
("r-statnet-common" ,r-statnet-common)))
|
|
(home-page "https://statnet.org")
|
|
(synopsis "Tools for social network analysis")
|
|
(description
|
|
"This package provides a range of tools for social network analysis,
|
|
including node and graph-level indices, structural distance and covariance
|
|
methods, structural equivalence detection, network regression, random graph
|
|
generation, and 2D/3D network visualization.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ttr
|
|
(package
|
|
(name "r-ttr")
|
|
(version "0.23-3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "TTR" version))
|
|
(sha256
|
|
(base32
|
|
"07r62ngyzjl4aszdxnr3n6bnbcgcap32yhd430jsilicg8n06di1"))))
|
|
(properties `((upstream-name . "TTR")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-curl" ,r-curl)
|
|
("r-xts" ,r-xts)
|
|
("r-zoo" ,r-zoo)))
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://github.com/joshuaulrich/TTR")
|
|
(synopsis "Technical trading rules")
|
|
(description
|
|
"This package provides functions and data to construct technical trading
|
|
rules with R.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-leaps
|
|
(package
|
|
(name "r-leaps")
|
|
(version "3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "leaps" version))
|
|
(sha256
|
|
(base32
|
|
"11gjmn1azrjw5xlvdb4gknj9985kck9x8zb9np1rnk2smp6pka2m"))))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/leaps/")
|
|
(synopsis "Regression subset selection")
|
|
(description
|
|
"This package provides tools for regression subset selection, including
|
|
exhaustive search.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-splus2r
|
|
(package
|
|
(name "r-splus2r")
|
|
(version "1.2-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "splus2R" version))
|
|
(sha256
|
|
(base32
|
|
"0xrbj8vxy0pc6hl7m8abv71d3hjw47cl51s7j7priadyqczkq6sz"))))
|
|
(properties `((upstream-name . "splus2R")))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/splus2R/")
|
|
(synopsis "Supplemental S-PLUS functionality in R")
|
|
(description
|
|
"Currently there are many functions in S-PLUS that are missing in R. To
|
|
facilitate the conversion of S-PLUS packages to R packages, this package
|
|
provides some missing S-PLUS functionality in R.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ifultools
|
|
(package
|
|
(name "r-ifultools")
|
|
(version "2.0-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ifultools" version))
|
|
(sha256
|
|
(base32
|
|
"0pv2msaa1rmj8csxdclzi2jwg9pfdvh87blj9j3xa3myisglq092"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-mass" ,r-mass)
|
|
("r-splus2r" ,r-splus2r)))
|
|
(home-page "https://cran.r-project.org/web/packages/ifultools/")
|
|
(synopsis "Insightful research tools")
|
|
(description "This package provides C code used by the wmtsa, fractal, and
|
|
sapa R packages.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-sapa
|
|
(package
|
|
(name "r-sapa")
|
|
(version "2.0-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sapa" version))
|
|
(sha256
|
|
(base32
|
|
"056xlh14dnzq4x7sbp7ff2k61jxy7110a742b502vz549qfrr5ds"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ifultools" ,r-ifultools)
|
|
("r-splus2r" ,r-splus2r)))
|
|
(home-page "https://cran.r-project.org/web/packages/sapa/")
|
|
(synopsis "Spectral analysis for physical applications")
|
|
(description "This package provides software for the book Spectral
|
|
Analysis for Physical Applications, Donald B. Percival and Andrew T. Walden,
|
|
Cambridge University Press, 1993.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-quantmod
|
|
(package
|
|
(name "r-quantmod")
|
|
(version "0.4-13")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "quantmod" version))
|
|
(sha256
|
|
(base32
|
|
"16aldg96z7amp5mr90nb8127yy04gxsihfr26km5p3cx3j117yv0"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-curl" ,r-curl)
|
|
("r-ttr" ,r-ttr)
|
|
("r-xts" ,r-xts)
|
|
("r-zoo" ,r-zoo)))
|
|
(home-page "https://cran.r-project.org/web/packages/quantmod/")
|
|
(synopsis "Quantitative financial modelling framework")
|
|
(description "This package provides a quantitative financial modelling
|
|
framework to allow users to specify, build, trade, and analyse quantitative
|
|
financial trading strategies.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-tseries
|
|
(package
|
|
(name "r-tseries")
|
|
(version "0.10-45")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "tseries" version))
|
|
(sha256
|
|
(base32
|
|
"14s1glh5zzdvdl05a2z7ymhgf962svxf8xircghg5sc649lb33n0"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-quadprog" ,r-quadprog)
|
|
("r-quantmod" ,r-quantmod)
|
|
("r-zoo" ,r-zoo)))
|
|
(native-inputs
|
|
`(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/tseries/")
|
|
(synopsis "Time series analysis and computational finance")
|
|
(description
|
|
"This package provides functions relating to time series analysis and
|
|
computational finance.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-wmtsa
|
|
(package
|
|
(name "r-wmtsa")
|
|
(version "2.0-3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "wmtsa" version))
|
|
(sha256
|
|
(base32
|
|
"1q436krz5p1f4a7a7sya6a9rh9x9mi8zzcgq66gbk9w9w4hcqcj6"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ifultools" ,r-ifultools)
|
|
("r-mass" ,r-mass)
|
|
("r-splus2r" ,r-splus2r)))
|
|
(home-page "https://cran.r-project.org/web/packages/wmtsa/")
|
|
(synopsis "Wavelet methods for time series analysis")
|
|
(description
|
|
"This package provides software to accompany the book \"Wavelet Methods
|
|
for Time Series Analysis\", Donald B. Percival and Andrew T. Walden, Cambridge
|
|
University Press, 2000.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-tsa
|
|
(package
|
|
(name "r-tsa")
|
|
(version "1.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "TSA" version))
|
|
(sha256
|
|
(base32
|
|
"0gjfqibwdznz0nka95k4fjm935svxjpnqfywwz403crn2lh30h6q"))))
|
|
(properties `((upstream-name . "TSA")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-leaps" ,r-leaps)
|
|
("r-locfit" ,r-locfit)
|
|
("r-mgcv" ,r-mgcv)))
|
|
(home-page "http://www.stat.uiowa.edu/~kchan/TSA.htm")
|
|
(synopsis "Time series analysis")
|
|
(description
|
|
"This package contains R functions and datasets detailed in the book
|
|
\"Time Series Analysis with Applications in R (second edition)\" by Jonathan
|
|
Cryer and Kung-Sik Chan.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-extradistr
|
|
(package
|
|
(name "r-extradistr")
|
|
(version "1.8.9")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "extraDistr" version))
|
|
(sha256
|
|
(base32
|
|
"1fg8vjpal33y51iqzglk1yvy46d7js0l0wfbdy698lq8a06hq19p"))))
|
|
(properties `((upstream-name . "extraDistr")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://github.com/twolodzko/extraDistr")
|
|
(synopsis "Additional univariate and multivariate distributions")
|
|
(description
|
|
"This package implements density, distribution functions, quantile
|
|
functions and random generation functions for a large number of univariate and
|
|
multivariate distributions.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-fractal
|
|
(package
|
|
(name "r-fractal")
|
|
(version "2.0-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "fractal" version))
|
|
(sha256
|
|
(base32
|
|
"18lr9z0gslvfc3z8vyj3krqj3bfhg60zv1fzinrwwkc4cpk1w7mp"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ifultools" ,r-ifultools)
|
|
("r-mass" ,r-mass)
|
|
("r-sapa" ,r-sapa)
|
|
("r-scatterplot3d" ,r-scatterplot3d)
|
|
("r-splus2r" ,r-splus2r)
|
|
("r-wmtsa" ,r-wmtsa)))
|
|
(home-page "https://cran.r-project.org/web/packages/fractal/")
|
|
(synopsis "Fractal time series modeling and analysis")
|
|
(description
|
|
"This package provides tools for stochastic fractal and deterministic
|
|
chaotic time series analysis.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-urca
|
|
(package
|
|
(name "r-urca")
|
|
(version "1.3-0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "urca" version))
|
|
(sha256
|
|
(base32
|
|
"1akaqwf3fvvvx4sgfn641fd4sj51s0701pvfl6s5hnz2k0iwh732"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-nlme" ,r-nlme)))
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/urca/")
|
|
(synopsis "Unit root and cointegration tests for time series data")
|
|
(description
|
|
"This package provides unit root and cointegration tests encountered in
|
|
applied econometric analysis.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-cubature
|
|
(package
|
|
(name "r-cubature")
|
|
(version "1.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "cubature" version))
|
|
(sha256
|
|
(base32
|
|
"1hd23b8v2kpqp5gr0va8p2q7j8w9rik6ks7zrr4b8mb2mwrakk74"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://github.com/bnaras/cubature")
|
|
(synopsis "Adaptive multivariate integration over hypercubes")
|
|
(description
|
|
"This package is an R wrapper around the cubature C library for adaptive
|
|
multivariate integration over hypercubes. This version provides both
|
|
@code{hcubature} and @code{pcubature} routines in addition to a vector
|
|
interface.")
|
|
;; The included cubature C library is released under GPLv2+, but the
|
|
;; wrapper declares the license to be GPLv3+.
|
|
(license (list license:gpl2+ license:gpl3+))))
|
|
|
|
(define-public r-trend
|
|
(package
|
|
(name "r-trend")
|
|
(version "1.1.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "trend" version))
|
|
(sha256
|
|
(base32
|
|
"1bd567n15k2vpmgbx02584k5kglrc58mlb5kgd07wdss3knpa48q"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-extradistr" ,r-extradistr)))
|
|
(native-inputs
|
|
`(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/trend/")
|
|
(synopsis "Non-parametric trend tests and change-point detection")
|
|
(description
|
|
"The analysis of environmental data often requires the detection of
|
|
trends and change-points. This package includes tests for trend
|
|
detection (Cox-Stuart Trend Test, Mann-Kendall Trend Test, (correlated)
|
|
Hirsch-Slack Test, partial Mann-Kendall Trend Test, multivariate (multisite)
|
|
Mann-Kendall Trend Test, (Seasonal) Sen's slope, partial Pearson and Spearman
|
|
correlation trend test), change-point detection (Lanzante's test procedures,
|
|
Pettitt's test, Buishand Range Test, Buishand U Test, Standard Normal
|
|
Homogeinity Test), detection of non-randomness (Wallis-Moore Phase Frequency
|
|
Test, Bartels rank von Neumann's ratio test, Wald-Wolfowitz Test) and the two
|
|
sample Robust Rank-Order Distributional Test.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-expm
|
|
(package
|
|
(name "r-expm")
|
|
(version "0.999-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "expm" version))
|
|
(sha256
|
|
(base32
|
|
"1mihl67kvv1xv0figp25jkmwfn4iwkcx15cng2348y8gm6zybw9q"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-matrix" ,r-matrix)))
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://r-forge.r-project.org/projects/expm/")
|
|
(synopsis "Tools for matrix exponentials and related quantities")
|
|
(description
|
|
"This package provides tools for the computation of the matrix
|
|
exponential, logarithm, square root, and related quantities.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-complexplus
|
|
(package
|
|
(name "r-complexplus")
|
|
(version "2.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "complexplus" version))
|
|
(sha256
|
|
(base32
|
|
"16w9v7d1ckavqmr86l34frr37pkvdn0iqnb17ssb8xaggns5lgqx"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-expm" ,r-expm)
|
|
("r-matrix" ,r-matrix)))
|
|
(home-page "https://cran.r-project.org/web/packages/complexplus/")
|
|
(synopsis "Functions of complex or real variables")
|
|
(description
|
|
"This package extends several functions to the complex domain, including
|
|
the matrix exponential and logarithm, and the determinant.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-phontools
|
|
(package
|
|
(name "r-phontools")
|
|
(version "0.2-2.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "phonTools" version))
|
|
(sha256
|
|
(base32
|
|
"01i481mhswsys3gpasw9gn6nxkfmi7bz46g5c84m13pg0cv8hxc7"))))
|
|
(properties `((upstream-name . "phonTools")))
|
|
(build-system r-build-system)
|
|
(home-page "http://www.santiagobarreda.com/rscripts.html")
|
|
(synopsis "Tools for phonetic and acoustic analyses")
|
|
(description
|
|
"This package contains tools for the organization, display, and analysis
|
|
of the sorts of data frequently encountered in phonetics research and
|
|
experimentation, including the easy creation of IPA vowel plots, and the
|
|
creation and manipulation of WAVE audio files.")
|
|
(license license:bsd-2)))
|
|
|
|
(define-public r-np
|
|
(package
|
|
(name "r-np")
|
|
(version "0.60-8")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "np" version))
|
|
(sha256
|
|
(base32
|
|
"17h67a510wh83800ri6g02wvznrlhigxni8shyijz1iaxcpk8k4j"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-boot" ,r-boot)
|
|
("r-cubature" ,r-cubature)
|
|
("r-quadprog" ,r-quadprog)
|
|
("r-quantreg" ,r-quantreg)))
|
|
(home-page "https://github.com/JeffreyRacine/R-Package-np")
|
|
(synopsis "Non-parametric kernel smoothing methods for mixed data types")
|
|
(description "This package provides non-parametric (and semi-parametric)
|
|
kernel methods that seamlessly handle a mix of continuous, unordered, and
|
|
ordered factor data types.")
|
|
;; Any version of the GPL.
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-powerplus
|
|
(package
|
|
(name "r-powerplus")
|
|
(version "3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "powerplus" version))
|
|
(sha256
|
|
(base32
|
|
"0ayp6x34hkzgris4j3zbbs0r23n81bhww3wgfyy630ri4sk6brrn"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-complexplus" ,r-complexplus)
|
|
("r-expm" ,r-expm)
|
|
("r-mass" ,r-mass)
|
|
("r-matrix" ,r-matrix)
|
|
("r-phontools" ,r-phontools)))
|
|
(home-page "https://cran.r-project.org/web/packages/powerplus/")
|
|
(synopsis "Exponentiation operations")
|
|
(description
|
|
"This package provides tools for the computation of matrix and scalar
|
|
exponentiation.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-heatmaply
|
|
(package
|
|
(name "r-heatmaply")
|
|
(version "0.15.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "heatmaply" version))
|
|
(sha256
|
|
(base32
|
|
"0h8s5djzj4mrmaswlcaap6jbwxrkbzc43bbqik3qf8vrqz335w04"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-assertthat" ,r-assertthat)
|
|
("r-colorspace" ,r-colorspace)
|
|
("r-dendextend" ,r-dendextend)
|
|
("r-ggplot2" ,r-ggplot2)
|
|
("r-gplots" ,r-gplots)
|
|
("r-htmlwidgets" ,r-htmlwidgets)
|
|
("r-knitr" ,r-knitr) ; needed for vignettes
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-plotly" ,r-plotly)
|
|
("r-rcolorbrewer" ,r-rcolorbrewer)
|
|
("r-reshape2" ,r-reshape2)
|
|
("r-scales" ,r-scales)
|
|
("r-seriation" ,r-seriation)
|
|
("r-viridis" ,r-viridis)
|
|
("r-webshot" ,r-webshot)))
|
|
(home-page "https://cran.r-project.org/package=heatmaply")
|
|
(synopsis "Interactive cluster heat maps using plotly")
|
|
(description
|
|
"This package enables you to create interactive cluster heatmaps that can
|
|
be saved as a stand-alone HTML file, embedded in R Markdown documents or in a
|
|
Shiny app, and made available in the RStudio viewer pane. Hover the mouse
|
|
pointer over a cell to show details or drag a rectangle to zoom. A heatmap is
|
|
a popular graphical method for visualizing high-dimensional data, in which a
|
|
table of numbers is encoded as a grid of colored cells. The rows and columns
|
|
of the matrix are ordered to highlight patterns and are often accompanied by
|
|
dendrograms.")
|
|
;; Either version of the license.
|
|
(license (list license:gpl2 license:gpl3))))
|
|
|
|
(define-public r-cgdsr
|
|
(package
|
|
(name "r-cgdsr")
|
|
(version "1.2.10")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "cgdsr" version))
|
|
(sha256
|
|
(base32
|
|
"1xyhw7mhmjichr1l6f9y1qvfj9wm87kfbm87ji7lcwf36gxh5g23"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-r-methodss3" ,r-r-methodss3)
|
|
("r-r-oo" ,r-r-oo)))
|
|
(home-page "https://github.com/cBioPortal/cgdsr")
|
|
(synopsis "R-based API for accessing the MSKCC Cancer Genomics Data Server")
|
|
(description
|
|
"This package provides a basic set of R functions for querying the Cancer
|
|
Genomics Data Server (CGDS), hosted by the Computational Biology Center at
|
|
Memorial-Sloan-Kettering Cancer Center (MSKCC).")
|
|
(license license:lgpl3)))
|
|
|
|
(define-public r-import
|
|
(package
|
|
(name "r-import")
|
|
(version "1.1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "import" version))
|
|
(sha256
|
|
(base32
|
|
"0blf9539rbfwcmw8zsb4k58slb4pdnc075v34vmyjw752fznhcji"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/smbache/import")
|
|
(synopsis "Import mechanism for R")
|
|
(description
|
|
"This is an alternative mechanism for importing objects from packages.
|
|
The syntax allows for importing multiple objects from a package with a single
|
|
command in an expressive way. The import package bridges some of the gap
|
|
between using @code{library} (or @code{require}) and direct (single-object)
|
|
imports. Furthermore the imported objects are not placed in the current
|
|
environment. It is also possible to import objects from stand-alone @code{.R}
|
|
files.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-shinyace
|
|
(package
|
|
(name "r-shinyace")
|
|
(version "0.3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "shinyAce" version))
|
|
(sha256
|
|
(base32
|
|
"1hqgszbiv99dibhwr21v21ll4s2hjn3ccqdicsm0z3gk77bh8iyb"))))
|
|
(properties `((upstream-name . "shinyAce")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-shiny" ,r-shiny)
|
|
("r-jsonlite" ,r-jsonlite)))
|
|
(home-page "http://cran.r-project.org/web/packages/shinyAce")
|
|
(synopsis "Ace editor bindings for Shiny")
|
|
(description
|
|
"This package provides Ace editor bindings to enable a rich text editing
|
|
environment within Shiny.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-radiant-data
|
|
(package
|
|
(name "r-radiant-data")
|
|
(version "0.9.5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "radiant.data" version))
|
|
(sha256
|
|
(base32
|
|
"0mbxfqn79nphii4hb6kxl2wc0w0ra16y378rp2yw9a9926zdb7mb"))
|
|
(modules '((guix build utils)))
|
|
(snippet
|
|
'(begin
|
|
;; Delete files that are under CC-NC-SA.
|
|
(delete-file-recursively "inst/app/tools/help")
|
|
#t))))
|
|
(properties `((upstream-name . "radiant.data")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-base64enc" ,r-base64enc)
|
|
("r-broom" ,r-broom)
|
|
("r-car" ,r-car)
|
|
("r-curl" ,r-curl)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-dt" ,r-dt)
|
|
("r-glue" ,r-glue)
|
|
("r-ggplot2" ,r-ggplot2)
|
|
("r-gridextra" ,r-gridextra)
|
|
("r-import" ,r-import)
|
|
("r-jsonlite" ,r-jsonlite)
|
|
("r-knitr" ,r-knitr)
|
|
("r-lubridate" ,r-lubridate)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-markdown" ,r-markdown)
|
|
("r-plotly" ,r-plotly)
|
|
("r-psych" ,r-psych)
|
|
("r-readr" ,r-readr)
|
|
("r-readxl" ,r-readxl)
|
|
("r-rlang" ,r-rlang)
|
|
("r-rmarkdown" ,r-rmarkdown)
|
|
("r-rstudioapi" ,r-rstudioapi)
|
|
("r-scales" ,r-scales)
|
|
("r-shiny" ,r-shiny)
|
|
("r-shinyace" ,r-shinyace)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyr" ,r-tidyr)
|
|
("r-writexl" ,r-writexl)))
|
|
(home-page "https://github.com/radiant-rstats/radiant.data")
|
|
(synopsis "Data menu for Radiant: business analytics using R and Shiny")
|
|
(description
|
|
"The Radiant Data menu includes interfaces for loading, saving, viewing,
|
|
visualizing, summarizing, transforming, and combining data. It also contains
|
|
functionality to generate reproducible reports of the analyses conducted in
|
|
the application.")
|
|
(license license:agpl3)))
|
|
|
|
(define-public r-algdesign
|
|
(package
|
|
(name "r-algdesign")
|
|
(version "1.1-7.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "AlgDesign" version))
|
|
(sha256
|
|
(base32
|
|
"0bl7mx4dnmkgs2x1fj7cqnrp7jx18mqwxyga0rzlniq12h8mc3fz"))))
|
|
(properties `((upstream-name . "AlgDesign")))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/jvbraun/AlgDesign")
|
|
(synopsis "Algorithmic experimental design")
|
|
(description
|
|
"This package provides tools to calculate exact and approximate theory
|
|
experimental designs for D, A, and I criteria. Very large designs may be
|
|
created. Experimental designs may be blocked or blocked designs created from
|
|
a candidate list, using several criteria. The blocking can be done when whole
|
|
and within plot factors interact.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-signal
|
|
(package
|
|
(name "r-signal")
|
|
(version "0.7-6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "signal" version))
|
|
(sha256
|
|
(base32
|
|
"1vsxramz5qd9q9s3vlqzmfdpmwl2rhlb2n904zw6f0fg0xxjfq3b"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-mass" ,r-mass)))
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/signal/")
|
|
(synopsis "Signal processing")
|
|
(description
|
|
"This package provides a set of signal processing functions originally
|
|
written for Matlab and GNU Octave. It includes filter generation utilities,
|
|
filtering functions, resampling routines, and visualization of filter models.
|
|
It also includes interpolation functions.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-gsubfn
|
|
(package
|
|
(name "r-gsubfn")
|
|
(version "0.7")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "gsubfn" version))
|
|
(sha256
|
|
(base32
|
|
"00j6b8b6xsx6v370h220x233rpk6asca78165y3d48jpwvwisdc9"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-proto" ,r-proto)))
|
|
(home-page "http://gsubfn.googlecode.com")
|
|
(synopsis "Utilities for strings and function arguments.")
|
|
(description
|
|
"This package provides @code{gsubfn} which is like @code{gsub} but can
|
|
take a replacement function or certain other objects instead of the
|
|
replacement string. Matches and back references are input to the replacement
|
|
function and replaced by the function output. @code{gsubfn} can be used to
|
|
split strings based on content rather than delimiters and for quasi-perl-style
|
|
string interpolation. The package also has facilities for translating
|
|
formulas to functions and allowing such formulas in function calls instead of
|
|
functions.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-sqldf
|
|
(package
|
|
(name "r-sqldf")
|
|
(version "0.4-11")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sqldf" version))
|
|
(sha256
|
|
(base32
|
|
"0q12vsb53p2wchgp8wfz5bk08wfnm0jxjrakclj4jyy6x3a7ksff"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-chron" ,r-chron)
|
|
("r-dbi" ,r-dbi)
|
|
("r-gsubfn" ,r-gsubfn)
|
|
("r-proto" ,r-proto)
|
|
("r-rsqlite" ,r-rsqlite)))
|
|
(home-page "https://github.com/ggrothendieck/sqldf")
|
|
(synopsis "Manipulate R data frames using SQL")
|
|
(description
|
|
"The @code{sqldf} function is typically passed a single argument which is
|
|
an SQL select statement where the table names are ordinary R data frame names.
|
|
@code{sqldf} transparently sets up a database, imports the data frames into
|
|
that database, performs the SQL statement and returns the result using a
|
|
heuristic to determine which class to assign to each column of the returned
|
|
data frame. The @code{sqldf} or @code{read.csv.sql} functions can also be
|
|
used to read filtered files into R even if the original files are larger than
|
|
R itself can handle.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-abind
|
|
(package
|
|
(name "r-abind")
|
|
(version "1.4-5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "abind" version))
|
|
(sha256
|
|
(base32
|
|
"0b1zd8jbnl6l292cr9rb50m09fy3ylxvzkpgi5lfb1nbzddcwfis"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/abind/")
|
|
(synopsis "Combine multidimensional arrays")
|
|
(description
|
|
"This package provides tools to combine multidimensional arrays into a
|
|
single array. This is a generalization of @code{cbind} and @code{rbind}. It
|
|
works with vectors, matrices, and higher-dimensional arrays. It also provides
|
|
the functions @code{adrop}, @code{asub}, and @code{afill} for manipulating,
|
|
extracting and replacing data in arrays.")
|
|
(license license:lgpl2.0+)))
|
|
|
|
(define-public r-prroc
|
|
(package
|
|
(name "r-prroc")
|
|
(version "1.3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "PRROC" version))
|
|
(sha256
|
|
(base32
|
|
"1m28h8pcd78049lz2qixhkcr9h5b3jik3maqzfbvq9y58z71i4a7"))))
|
|
(properties `((upstream-name . "PRROC")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/PRROC/")
|
|
(synopsis "Precision-Recall and ROC curves for weighted and unweighted data")
|
|
(description
|
|
"This package computes the areas under the @dfn{precision-recall} (PR)
|
|
and ROC curve for weighted (e.g. soft-labeled) and unweighted data. In
|
|
contrast to other implementations, the interpolation between points of the PR
|
|
curve is done by a non-linear piecewise function. In addition to the areas
|
|
under the curves, the curves themselves can also be computed and plotted by a
|
|
specific S3-method.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-vim
|
|
(package
|
|
(name "r-vim")
|
|
(version "4.7.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "VIM" version))
|
|
(sha256
|
|
(base32
|
|
"1vjcs5wvjv94ln01d94h9rs4j50d3ky4n26mm3prgh13raylrmnd"))))
|
|
(properties `((upstream-name . "VIM")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-car" ,r-car)
|
|
("r-colorspace" ,r-colorspace)
|
|
("r-data-table" ,r-data-table)
|
|
("r-e1071" ,r-e1071)
|
|
("r-laeken" ,r-laeken)
|
|
("r-mass" ,r-mass)
|
|
("r-nnet" ,r-nnet)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-robustbase" ,r-robustbase)
|
|
("r-sp" ,r-sp)
|
|
("r-vcd" ,r-vcd)))
|
|
(home-page "https://github.com/alexkowa/VIM")
|
|
(synopsis "Visualization and imputation of missing values")
|
|
(description
|
|
"This package provides tools for the visualization of missing and/or
|
|
imputed values are introduced, which can be used for exploring the data and
|
|
the structure of the missing and/or imputed values. Depending on this
|
|
structure of the missing values, the corresponding methods may help to
|
|
identify the mechanism generating the missing values and allows to explore the
|
|
data including missing values. In addition, the quality of imputation can be
|
|
visually explored using various univariate, bivariate, multiple and
|
|
multivariate plot methods.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-fnn
|
|
(package
|
|
(name "r-fnn")
|
|
(version "1.1.2.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "FNN" version))
|
|
(sha256
|
|
(base32
|
|
"1n61jrcmakqif8f827x4qnlhm2jqpj5fgjj65c4p0kdd8lzw8pqp"))))
|
|
(properties `((upstream-name . "FNN")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/FNN")
|
|
(synopsis "Fast nearest neighbor search algorithms and applications")
|
|
(description
|
|
"This package provides cover-tree and kd-tree fast k-nearest neighbor
|
|
search algorithms. Related applications including KNN classification,
|
|
regression and information measures are implemented.")
|
|
;; The DESCRIPTION file erroneously states that GPL version 2.1 or
|
|
;; later can be used.
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-smoother
|
|
(package
|
|
(name "r-smoother")
|
|
(version "1.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "smoother" version))
|
|
(sha256
|
|
(base32
|
|
"0nqr1bvlr5bnasqg74zmknjjl4x28kla9h5cxpga3kq5z215pdci"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ttr" ,r-ttr)))
|
|
(home-page "http://cran.r-project.org/web/packages/smoother")
|
|
(synopsis "Functions relating to the smoothing of numerical data")
|
|
(description
|
|
"This package provides a collection of methods for smoothing numerical
|
|
data, commencing with a port of the Matlab gaussian window smoothing function.
|
|
In addition, several functions typically used in smoothing of financial data
|
|
are included.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-riverplot
|
|
(package
|
|
(name "r-riverplot")
|
|
(version "0.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "riverplot" version))
|
|
(sha256
|
|
(base32
|
|
"0q1icpny8nkxyjhawyjzwrw8qlz0ayn2xyrsqrm4vkxyv6c9xk8z"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://logfc.wordpress.com")
|
|
(synopsis "Sankey or ribbon plots")
|
|
(description
|
|
"Sankey plots are a type of diagram that is convenient to illustrate how
|
|
flow of information, resources etc. separates and joins, much like observing
|
|
how rivers split and merge. For example, they can be used to compare
|
|
different clusterings. This package provides an implementation of Sankey
|
|
plots for R.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-dyn
|
|
(package
|
|
(name "r-dyn")
|
|
(version "0.2-9.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "dyn" version))
|
|
(sha256
|
|
(base32
|
|
"16fqv9k7yxdgybwzafjkyqm16qpgqz13lcjpi6a1nc8xbzlzh0gb"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-zoo" ,r-zoo)))
|
|
(home-page "https://cran.r-project.org/web/packages/dyn")
|
|
(synopsis "Time series regression")
|
|
(description
|
|
"This package provides the dyn class interfaces @code{ts}, @code{irts},
|
|
@code{zoo} and @code{zooreg} time series classes to @code{lm}, @code{glm},
|
|
@code{loess}, @code{quantreg::rq}, @code{MASS::rlm},
|
|
@code{MCMCpack::MCMCregress()}, @code{quantreg::rq()},
|
|
@code{randomForest::randomForest()} and other regression functions, allowing
|
|
those functions to be used with time series including specifications that may
|
|
contain lags, diffs and missing values.")
|
|
;; Any GPL version.
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-catdap
|
|
(package
|
|
(name "r-catdap")
|
|
(version "1.3.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "catdap" version))
|
|
(sha256
|
|
(base32
|
|
"0i877l61f6c75pczi235rzci67w29zv1d7z5zn5p5ymndclvlpl2"))))
|
|
(build-system r-build-system)
|
|
(native-inputs
|
|
`(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/catdap/")
|
|
(synopsis "Tools for categorical data analysis")
|
|
(description
|
|
"This package provides functions for analyzing multivariate data.
|
|
Dependencies of the distribution of the specified variable (response
|
|
variable) to other variables (explanatory variables) are derived and
|
|
evaluated by the @dfn{Akaike Information Criterion} (AIC).")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-arules
|
|
(package
|
|
(name "r-arules")
|
|
(version "1.6-1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "arules" version))
|
|
(sha256
|
|
(base32
|
|
"0glfqgxr87900kigmkby2ff7qrjvd6aq595q85y056i5ckjcp615"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-matrix" ,r-matrix)))
|
|
(home-page "https://github.com/mhahsler/arules")
|
|
(synopsis "Mining association rules and frequent itemsets")
|
|
(description
|
|
"This package provides an infrastructure for representing, manipulating
|
|
and analyzing transaction data and patterns (frequent itemsets and association rules).
|
|
It also provides C implementations of the association mining algorithms Apriori
|
|
and Eclat.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-parsedate
|
|
(package
|
|
(name "r-parsedate")
|
|
(version "1.1.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "parsedate" version))
|
|
(sha256
|
|
(base32
|
|
"0mg7hbm3903iwvmpn51gjpaaq03rsp72hjb1g8h5g84r81iha002"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/gaborcsardi/parsedate")
|
|
(synopsis
|
|
"Recognize and parse dates in various formats")
|
|
(description
|
|
"This package provides three functions for dealing with dates:
|
|
@code{parse_iso_8601} recognizes and parses all valid ISO 8601 date and
|
|
time formats, @code{parse_date} parses dates in unspecified formats,
|
|
and @code{format_iso_8601} formats a date in ISO 8601 format.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-abc-data
|
|
(package
|
|
(name "r-abc-data")
|
|
(version "1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "abc.data" version))
|
|
(sha256
|
|
(base32
|
|
"1bv1n68ah714ws58cf285n2s2v5vn7382lfjca4jxph57lyg8hmj"))))
|
|
(properties `((upstream-name . "abc.data")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/abc.data/")
|
|
(synopsis "Data for Approximate Bayesian Computation (ABC) package")
|
|
(description
|
|
"This package contains data which are used by functions of the abc
|
|
package which implements several @dfn{Approximate Bayesian Computation} (ABC)
|
|
algorithms for performing parameter estimation, model selection, and
|
|
goodness-of-fit.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-abc
|
|
(package
|
|
(name "r-abc")
|
|
(version "2.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "abc" version))
|
|
(sha256
|
|
(base32
|
|
"0ngzaaz2y2s03fhngvwipmy4kq38xrmyddaz6a6l858rxvadrlhb"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-abc-data" ,r-abc-data)
|
|
("r-locfit" ,r-locfit)
|
|
("r-mass" ,r-mass)
|
|
("r-nnet" ,r-nnet)
|
|
("r-quantreg" ,r-quantreg)))
|
|
(home-page "https://cran.r-project.org/web/packages/abc/")
|
|
(synopsis "Tools for Approximate Bayesian Computation (ABC)")
|
|
(description
|
|
"This package implements several @dfn{Approximate Bayesian
|
|
Computation} (ABC) algorithms for performing parameter estimation, model
|
|
selection, and goodness-of-fit. Cross-validation tools are also available for
|
|
measuring the accuracy of ABC estimates, and to calculate the
|
|
misclassification probabilities of different models.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-zip
|
|
(package
|
|
(name "r-zip")
|
|
(version "1.0.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "zip" version))
|
|
(sha256
|
|
(base32
|
|
"0rgr9pcdhdq3k8n29h2ircp3ri1ibhrx81gja1y7331v15xyrabg"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/gaborcsardi/zip")
|
|
(synopsis "Cross-platform Zip compression")
|
|
(description
|
|
"This package provides a cross-platform Zip compression library for R.
|
|
It is a replacement for the @code{zip} function, that does not require any
|
|
additional external tools on any platform.")
|
|
(license license:cc0)))
|
|
|
|
(define-public r-openxlsx
|
|
(package
|
|
(name "r-openxlsx")
|
|
(version "4.1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "openxlsx" version))
|
|
(sha256
|
|
(base32
|
|
"1n7z22pm78xa77fvn77kdn68az6xzxk36y11sqf0w6h6adri4yxb"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-rcpp" ,r-rcpp)
|
|
("r-zip" ,r-zip)))
|
|
(home-page "https://github.com/awalker89/openxlsx")
|
|
(synopsis "Read, write and edit XLSX files")
|
|
(description
|
|
"This package simplifies the creation of Excel @code{.xlsx} files by
|
|
providing a high level interface to writing, styling and editing worksheets.
|
|
Through the use of Rcpp, read/write times are comparable to the @code{xlsx}
|
|
and @code{XLConnect} packages with the added benefit of removing the
|
|
dependency on Java.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-rio
|
|
(package
|
|
(name "r-rio")
|
|
(version "0.5.10")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "rio" version))
|
|
(sha256
|
|
(base32
|
|
"158xg3vj0glk3fslwi6fywwmfym2b6kn3fdmjligdfy5lf68khix"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-curl" ,r-curl)
|
|
("r-data-table" ,r-data-table)
|
|
("r-foreign" ,r-foreign)
|
|
("r-haven" ,r-haven)
|
|
("r-openxlsx" ,r-openxlsx)
|
|
("r-readxl" ,r-readxl)
|
|
("r-tibble" ,r-tibble)))
|
|
(home-page "https://github.com/leeper/rio")
|
|
(synopsis "Swiss-army knife for data I/O")
|
|
(description
|
|
"This package provides streamlined data import and export infrastructure
|
|
by making assumptions that the user is probably willing to make: @code{import}
|
|
and @code{export} determine the data structure from the file extension,
|
|
reasonable defaults are used for data import and export (e.g.,
|
|
@code{stringsAsFactors=FALSE}), web-based import is natively
|
|
supported (including from SSL/HTTPS), compressed files can be read directly
|
|
without explicit decompression, and fast import packages are used where
|
|
appropriate. An additional convenience function, @code{convert}, provides a
|
|
simple method for converting between file types.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-maptools
|
|
(package
|
|
(name "r-maptools")
|
|
(version "0.9-3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "maptools" version))
|
|
(sha256
|
|
(base32
|
|
"0hxbv01im9zk1qrwgigpc510w6x0kzdzip4gx2jzfqmmwr8m17r8"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-foreign" ,r-foreign)
|
|
("r-lattice" ,r-lattice)
|
|
("r-sp" ,r-sp)))
|
|
(home-page "http://r-forge.r-project.org/projects/maptools/")
|
|
(synopsis "Tools for reading and handling spatial objects")
|
|
(description
|
|
"This package provides a set of tools for manipulating and reading
|
|
geographic data, in particular ESRI Shapefiles. It includes binary access to
|
|
GSHHG shoreline files. The package also provides interface wrappers for
|
|
exchanging spatial objects with other R packages.")
|
|
;; The C source files from shapelib are released under the Expat license.
|
|
;; The R code is released under GPL version 2 or later.
|
|
(license (list license:gpl2+
|
|
license:expat))))
|
|
|
|
(define-public r-later
|
|
(package
|
|
(name "r-later")
|
|
(version "0.7.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "later" version))
|
|
(sha256
|
|
(base32
|
|
"125zc499gj702x2bch95lsfzk2qb4dzv3604x9afym2i3ylrmm64"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-bh" ,r-bh)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-rlang" ,r-rlang)))
|
|
(home-page "https://github.com/r-lib/later")
|
|
(synopsis "Utilities for delaying function execution")
|
|
(description
|
|
"This package provides tools to execute arbitrary R or C functions some
|
|
time after the current time, after the R execution stack has emptied.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-promises
|
|
(package
|
|
(name "r-promises")
|
|
(version "1.0.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "promises" version))
|
|
(sha256
|
|
(base32
|
|
"0n2mlv6bvfb4yhgcml696l9vkbw21pz0smqylivr606z99rwgny2"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-later" ,r-later)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-r6" ,r-r6)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-rlang" ,r-rlang)))
|
|
(home-page "https://rstudio.github.io/promises")
|
|
(synopsis "Abstractions for promise-based asynchronous programming")
|
|
(description
|
|
"This package provides fundamental abstractions for doing asynchronous
|
|
programming in R using promises. Asynchronous programming is useful for
|
|
allowing a single R process to orchestrate multiple tasks in the background
|
|
while also attending to something else. Semantics are similar to JavaScript
|
|
promises, but with a syntax that is idiomatic R.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-dosnow
|
|
(package
|
|
(name "r-dosnow")
|
|
(version "1.0.16")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "doSNOW" version))
|
|
(sha256
|
|
(base32
|
|
"13ir4a8252h4yvp5ir9xnwack1kn58i4ny6sf2qdc12zspn3850n"))))
|
|
(properties `((upstream-name . "doSNOW")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-foreach" ,r-foreach)
|
|
("r-iterators" ,r-iterators)
|
|
("r-snow" ,r-snow)))
|
|
(home-page "https://cran.r-project.org/web/packages/doSNOW")
|
|
(synopsis "Foreach parallel adaptor for the snow package")
|
|
(description
|
|
"This package provides a parallel backend for the @code{%dopar%} function
|
|
using the @code{snow} package.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-snowfall
|
|
(package
|
|
(name "r-snowfall")
|
|
(version "1.84-6.1")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "snowfall" version))
|
|
(sha256
|
|
(base32 "13941rlw1jsdjsndp1plzj1cq5aqravizkrqn6l25r9im7rnsi2w"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-snow" ,r-snow)))
|
|
(home-page "http://cran.r-project.org/web/packages/snowfall/")
|
|
(synopsis "Easier cluster computing")
|
|
(description "This package is a usability wrapper around snow for easier
|
|
development of parallel R programs. This package offers e.g. extended error
|
|
checks, and additional functions. All functions work in sequential mode, too,
|
|
if no cluster is present or wished. The package is also designed as connector
|
|
to the cluster management tool @code{sfCluster}, but can also used without
|
|
it.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-rappdirs
|
|
(package
|
|
(name "r-rappdirs")
|
|
(version "0.3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "rappdirs" version))
|
|
(sha256
|
|
(base32
|
|
"0ji6sg3bdn5gazkq14xmmcq7jnbsyxw4lzmmbgv6526j2vn93n1g"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/rappdirs/")
|
|
(synopsis "Determine where to save data, caches, and logs")
|
|
(description
|
|
"This package provides an easy way to determine which directories on the
|
|
user's computer should be used to save data, caches and logs. It is a port of
|
|
Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-learnr
|
|
(package
|
|
(name "r-learnr")
|
|
(version "0.9.2.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "learnr" version))
|
|
(sha256
|
|
(base32
|
|
"0jbk0g6fkw7zs8ykzhsvh9vvz8xmc4v03bqzjsa5mmpxpqan5vx5"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-evaluate" ,r-evaluate)
|
|
("r-htmltools" ,r-htmltools)
|
|
("r-htmlwidgets" ,r-htmlwidgets)
|
|
("r-jsonlite" ,r-jsonlite)
|
|
("r-knitr" ,r-knitr)
|
|
("r-markdown" ,r-markdown)
|
|
("r-rappdirs" ,r-rappdirs)
|
|
("r-rmarkdown" ,r-rmarkdown)
|
|
("r-rprojroot" ,r-rprojroot)
|
|
("r-shiny" ,r-shiny)
|
|
("r-withr" ,r-withr)))
|
|
(home-page "https://rstudio.github.io/learnr/")
|
|
(synopsis "Interactive tutorials for R")
|
|
(description
|
|
"This package provides tools to create interactive tutorials using R
|
|
Markdown. Use a combination of narrative, figures, videos, exercises, and
|
|
quizzes to create self-paced tutorials for learning about R and R packages.")
|
|
(license license:asl2.0)))
|
|
|
|
(define-public r-analytics
|
|
(package
|
|
(name "r-analytics")
|
|
(version "2.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "analytics" version))
|
|
(sha256
|
|
(base32
|
|
"1jkdjqc3fnvvsgi6x9ncf36rxzq0a55cmgkcv92mfmpcramg2lk6"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-car" ,r-car)
|
|
("r-cluster" ,r-cluster)
|
|
("r-fractal" ,r-fractal)
|
|
("r-lmtest" ,r-lmtest)
|
|
("r-mass" ,r-mass)
|
|
("r-np" ,r-np)
|
|
("r-powerplus" ,r-powerplus)
|
|
("r-robust" ,r-robust)
|
|
("r-trend" ,r-trend)
|
|
("r-tsa" ,r-tsa)
|
|
("r-urca" ,r-urca)))
|
|
(home-page "https://cran.r-project.org/web/packages/analytics/")
|
|
(synopsis "Collection of data analysis tools")
|
|
(description
|
|
"This package is a collection of data analysis tools. It includes tools
|
|
for regression outlier detection in a fitted linear model, stationary
|
|
bootstrap using a truncated geometric distribution, a comprehensive test for
|
|
weak stationarity, column means by group, weighted biplots, and a heuristic to
|
|
obtain a better initial configuration in non-metric MDS.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-reticulate
|
|
(package
|
|
(name "r-reticulate")
|
|
(version "1.10")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "reticulate" version))
|
|
(sha256
|
|
(base32
|
|
"0bz3lxbisjwn6cv23090zivpy0bxcncr82g5qja13l37i8xnvqsq"))))
|
|
(build-system r-build-system)
|
|
(inputs `(("python" ,python)))
|
|
(propagated-inputs
|
|
`(("r-jsonlite" ,r-jsonlite)
|
|
("r-matrix" ,r-matrix)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://github.com/rstudio/reticulate")
|
|
(synopsis "R interface to Python")
|
|
(description
|
|
"This package provides an interface from R to Python modules, classes,
|
|
and functions. When calling into Python, R data types are automatically
|
|
converted to their equivalent Python types. When values are returned from
|
|
Python to R they are converted back to R types.")
|
|
(license license:asl2.0)))
|
|
|
|
(define-public r-bibtex
|
|
(package
|
|
(name "r-bibtex")
|
|
(version "0.4.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "bibtex" version))
|
|
(sha256
|
|
(base32
|
|
"0wl3925ryd54g1nv3ncwllc493d39dpgy5md61940h69c0van1hz"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-stringr" ,r-stringr)))
|
|
(home-page "https://github.com/romainfrancois/bibtex")
|
|
(synopsis "Bibtex parser")
|
|
(description "This package provides a utility for R to parse a bibtex
|
|
file.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ggseqlogo
|
|
(package
|
|
(name "r-ggseqlogo")
|
|
(version "0.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggseqlogo" version))
|
|
(sha256
|
|
(base32
|
|
"13q6kcpxrqxqbji889fx63p0nsi08lk5yymkchig75r5k1d18ky1"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-ggplot2" ,r-ggplot2)))
|
|
(home-page "https://github.com/omarwagih/ggseqlogo")
|
|
(synopsis "ggplot2 extension for drawing genetic sequence logos")
|
|
(description
|
|
"The range of functions provided by this package makes it possible to
|
|
draw highly versatile genomic sequence logos. Features include, but are not
|
|
limited to, modifying colour schemes and fonts used to draw the logo,
|
|
generating multiple logo plots, and aiding the visualisation with annotations.
|
|
Sequence logos can easily be combined with other ggplot2 plots.")
|
|
;; Unspecified version of the LGPL.
|
|
(license license:lgpl3+)))
|
|
|
|
(define-public r-ggsci
|
|
(package
|
|
(name "r-ggsci")
|
|
(version "2.9")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggsci" version))
|
|
(sha256
|
|
(base32
|
|
"0g73x6grbka7ahjh6z23m3wrcifp5rdfdiasbl8lq4sp6rplxwaa"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-scales" ,r-scales)))
|
|
(home-page "https://nanx.me/ggsci/")
|
|
(synopsis "Scientific journal and sci-fi themed color palettes for ggplot2")
|
|
(description
|
|
"This package provides a collection of ggplot2 color palettes inspired by
|
|
plots in scientific journals, data visualization libraries, science fiction
|
|
movies, and TV shows.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-ggsignif
|
|
(package
|
|
(name "r-ggsignif")
|
|
(version "0.4.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggsignif" version))
|
|
(sha256
|
|
(base32
|
|
"1rn58d7pb3axk6chiihryykrzw76adaa2yiafq4d0j6qbhax78f7"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)))
|
|
(home-page "https://github.com/const-ae/ggsignif")
|
|
(synopsis "Significance brackets for ggplot2")
|
|
(description
|
|
"Enrich your ggplots with group-wise comparisons. This package provides
|
|
an easy way to indicate if two groups are significantly different. Commonly
|
|
this is shown by a bracket on top connecting the groups of interest which
|
|
itself is annotated with the level of significance. The package provides a
|
|
single layer that takes the groups for comparison and the test as arguments
|
|
and adds the annotation to the plot.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-ggpubr
|
|
(package
|
|
(name "r-ggpubr")
|
|
(version "0.1.8")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggpubr" version))
|
|
(sha256
|
|
(base32
|
|
"0psl2zndm4wk6nnj1nv305islpxfvfgd87gjh2ph8yqn4mxpnfi1"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-cowplot" ,r-cowplot)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-ggplot2" ,r-ggplot2)
|
|
("r-ggrepel" ,r-ggrepel)
|
|
("r-ggsci" ,r-ggsci)
|
|
("r-ggsignif" ,r-ggsignif)
|
|
("r-glue" ,r-glue)
|
|
("r-gridextra" ,r-gridextra)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-polynom" ,r-polynom)
|
|
("r-purrr" ,r-purrr)
|
|
("r-scales" ,r-scales)
|
|
("r-tidyr" ,r-tidyr)))
|
|
(home-page "http://www.sthda.com/english/rpkgs/ggpubr")
|
|
(synopsis "ggplot2-based publication-ready plots")
|
|
(description
|
|
"The ggplot2 package is an excellent and flexible package for elegant
|
|
data visualization in R. However the default generated plots require some
|
|
formatting before we can send them for publication. The ggpubr package
|
|
provides some easy-to-use functions for creating and customizing ggplot2-based
|
|
publication-ready plots.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-ellipse
|
|
(package
|
|
(name "r-ellipse")
|
|
(version "0.4.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ellipse" version))
|
|
(sha256
|
|
(base32
|
|
"0g82vc51m3c1k0hnpp2zla6amxxgk2mmkl8ssnsc49jv3599r6hs"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/ellipse/")
|
|
(synopsis "Functions for drawing ellipses and ellipse-like confidence regions")
|
|
(description
|
|
"This package contains various routines for drawing ellipses and
|
|
ellipse-like confidence regions, implementing the plots described in Murdoch
|
|
and Chow (1996), A graphical display of large correlation matrices, The
|
|
American Statistician 50, 178-180. There are also routines implementing the
|
|
profile plots described in Bates and Watts (1988), Nonlinear Regression
|
|
Analysis and its Applications.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-flashclust
|
|
(package
|
|
(name "r-flashclust")
|
|
(version "1.01-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "flashClust" version))
|
|
(sha256
|
|
(base32
|
|
"0l4lpz451ll7f7lfxmb7ds24ppzhfg1c3ypvydglcc35p2dq99s8"))))
|
|
(properties `((upstream-name . "flashClust")))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/flashClust/")
|
|
(synopsis "Implementation of optimal hierarchical clustering")
|
|
(description
|
|
"This package provides a fast implementation of hierarchical
|
|
clustering.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-factominer
|
|
(package
|
|
(name "r-factominer")
|
|
(version "1.41")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "FactoMineR" version))
|
|
(sha256
|
|
(base32
|
|
"1h20hydav6l2b7bngqw1av4l5rrh0wk58nhailga1f4qw9lrv259"))))
|
|
(properties `((upstream-name . "FactoMineR")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-car" ,r-car)
|
|
("r-cluster" ,r-cluster)
|
|
("r-ellipse" ,r-ellipse)
|
|
("r-flashclust" ,r-flashclust)
|
|
("r-lattice" ,r-lattice)
|
|
("r-leaps" ,r-leaps)
|
|
("r-mass" ,r-mass)
|
|
("r-scatterplot3d" ,r-scatterplot3d)))
|
|
(home-page "http://factominer.free.fr")
|
|
(synopsis "Multivariate exploratory data analysis and data mining")
|
|
(description
|
|
"This package provides exploratory data analysis methods to summarize,
|
|
visualize and describe datasets. The main principal component methods are
|
|
available, those with the largest potential in terms of applications:
|
|
principal component analysis (PCA) when variables are quantitative,
|
|
correspondence analysis (CA) and multiple correspondence analysis (MCA) when
|
|
variables are categorical, Multiple Factor Analysis when variables are
|
|
structured in groups, etc. and hierarchical cluster analysis.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-factoextra
|
|
(package
|
|
(name "r-factoextra")
|
|
(version "1.0.5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "factoextra" version))
|
|
(sha256
|
|
(base32
|
|
"1l6m8k7qhdw8ndar8nhmym0lfyd1i2iszl1cicjax0vq23ss6xw1"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-abind" ,r-abind)
|
|
("r-cluster" ,r-cluster)
|
|
("r-dendextend" ,r-dendextend)
|
|
("r-factominer" ,r-factominer)
|
|
("r-ggplot2" ,r-ggplot2)
|
|
("r-ggpubr" ,r-ggpubr)
|
|
("r-ggrepel" ,r-ggrepel)
|
|
("r-reshape2" ,r-reshape2)
|
|
("r-tidyr" ,r-tidyr)))
|
|
(home-page "http://www.sthda.com/english/rpkgs/factoextra")
|
|
(synopsis "Extract and visualize the results of multivariate data analyses")
|
|
(description
|
|
"This package provides some easy-to-use functions to extract and
|
|
visualize the output of multivariate data analyses, including
|
|
@code{PCA} (Principal Component Analysis), @code{CA} (Correspondence
|
|
Analysis), @code{MCA} (Multiple Correspondence Analysis), @code{FAMD} (Factor
|
|
Analysis of Mixed Data), @code{MFA} (Multiple Factor Analysis) and
|
|
@code{HMFA} (Hierarchical Multiple Factor Analysis) functions from different R
|
|
packages. It contains also functions for simplifying some clustering analysis
|
|
steps and provides ggplot2-based elegant data visualization.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-fansi
|
|
(package
|
|
(name "r-fansi")
|
|
(version "0.3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "fansi" version))
|
|
(sha256
|
|
(base32
|
|
"135qj7bcc3mwn0vg55hiiadf66lx6zaxvkicfmfw9x0zr7ah2r6x"))))
|
|
(build-system r-build-system)
|
|
(native-inputs
|
|
`(("r-knitr" ,r-knitr))) ; for vignettes
|
|
(home-page "https://github.com/brodieG/fansi")
|
|
(synopsis "ANSI control sequence aware string functions")
|
|
(description
|
|
"This package provides counterparts to R string manipulation functions
|
|
that account for the effects of ANSI text formatting control sequences.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-nbclust
|
|
(package
|
|
(name "r-nbclust")
|
|
(version "3.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "NbClust" version))
|
|
(sha256
|
|
(base32
|
|
"1vwb48zy6ln1ddpqmfngii1i80n8qmqyxnzdp6gbaq96lakl3w3c"))))
|
|
(properties `((upstream-name . "NbClust")))
|
|
(build-system r-build-system)
|
|
(home-page "https://sites.google.com/site/malikacharrad/research/nbclust-package")
|
|
(synopsis "Determine the best number of clusters in a data set")
|
|
(description
|
|
"NbClust provides 30 indexes for determining the optimal number of
|
|
clusters in a data set and offers the best clustering scheme from different
|
|
results to the user.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-hdf5r
|
|
(package
|
|
(name "r-hdf5r")
|
|
(version "1.0.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "hdf5r" version))
|
|
(sha256
|
|
(base32
|
|
"1s6p4cj909kc635fh5xpl87bqlcdj3dn3r1wk5g40abimk2b0pva"))))
|
|
(build-system r-build-system)
|
|
(inputs
|
|
`(("hdf5" ,hdf5)
|
|
("zlib" ,zlib)))
|
|
(propagated-inputs
|
|
`(("r-bit64" ,r-bit64)
|
|
("r-r6" ,r-r6)))
|
|
(home-page "https://hhoeflin.github.io/hdf5r")
|
|
(synopsis "Interface to the HDF5 binary data format")
|
|
(description
|
|
"HDF5 is a data model, library and file format for storing and managing
|
|
large amounts of data. This package provides a nearly feature complete,
|
|
object oriented wrapper for the HDF5 API using R6 classes. Additionally,
|
|
functionality is added so that HDF5 objects behave very similar to their
|
|
corresponding R counterparts.")
|
|
(license license:asl2.0)))
|
|
|
|
(define-public r-itertools
|
|
(package
|
|
(name "r-itertools")
|
|
(version "0.1-3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "itertools" version))
|
|
(sha256
|
|
(base32
|
|
"1ls5biiva10pb1dj3ph4griykb9vam02hkrdmlr5a5wf660hg6xn"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-iterators" ,r-iterators)))
|
|
(home-page "https://cran.r-project.org/web/packages/itertools/")
|
|
(synopsis "Iterator tools")
|
|
(description
|
|
"This package provides various tools for creating iterators, many
|
|
patterned after functions in the Python @code{itertools} module, and others
|
|
patterned after functions in the snow package.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-polynom
|
|
(package
|
|
(name "r-polynom")
|
|
(version "1.3-9")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "polynom" version))
|
|
(sha256
|
|
(base32
|
|
"1s4xxv5rvpigawknvq27v9vzvs83phfsj5h8mim2lmf5bj950nnk"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/polynom/")
|
|
(synopsis "Functions for univariate polynomial manipulations")
|
|
(description
|
|
"This package provides a collection of functions to implement a class for
|
|
univariate polynomial manipulations.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-gbrd
|
|
(package
|
|
(name "r-gbrd")
|
|
(version "0.4-11")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "gbRd" version))
|
|
(sha256
|
|
(base32
|
|
"06x97rw5i6v6cgjxkfhxnw4dn7lghn5q6ra7ri5ag1x9dkfzcl82"))))
|
|
(properties `((upstream-name . "gbRd")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/gbRd/")
|
|
(synopsis "Utilities for processing Rd objects and files")
|
|
(description
|
|
"This package provides utilities for processing Rd objects and files.
|
|
Extract argument descriptions and other parts of the help pages of
|
|
functions.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-rdpack
|
|
(package
|
|
(name "r-rdpack")
|
|
(version "0.9-0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "Rdpack" version))
|
|
(sha256
|
|
(base32
|
|
"067w0w6kza0hkzcnx58danl83yfvl9yjacr47mnid2bg856gdd1b"))))
|
|
(properties `((upstream-name . "Rdpack")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-bibtex" ,r-bibtex)
|
|
("r-gbrd" ,r-gbrd)))
|
|
(home-page "https://github.com/GeoBosh/Rdpack")
|
|
(synopsis "Update and manipulate Rd documentation objects")
|
|
(description
|
|
"This package provides functions for manipulation of R documentation
|
|
objects, including functions @code{reprompt()} and @code{ereprompt()} for
|
|
updating Rd documentation for functions, methods and classes; it also includes
|
|
Rd macros for citations and import of references from bibtex files for use in
|
|
Rd files and roxygen2 comments, as well as many functions for manipulation of
|
|
references and Rd files.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-officer
|
|
(package
|
|
(name "r-officer")
|
|
(version "0.3.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "officer" version))
|
|
(sha256
|
|
(base32
|
|
"14b6ii9h3fi5g8ja929mfhxps9r7x78flqjdy437y9aygkhmiz2i"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-base64enc" ,r-base64enc)
|
|
("r-digest" ,r-digest)
|
|
("r-htmltools" ,r-htmltools)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-r6" ,r-r6)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-uuid" ,r-uuid)
|
|
("r-xml2" ,r-xml2)
|
|
("r-zip" ,r-zip)))
|
|
(home-page "https://davidgohel.github.io/officer")
|
|
(synopsis "Manipulation of Word and PowerPoint documents")
|
|
(description
|
|
"This package provides tools to access and manipulate Word and PowerPoint
|
|
documents from R. The package focuses on tabular and graphical reporting from
|
|
R; it also provides two functions that let users get document content into
|
|
data objects. A set of functions lets add and remove images, tables and
|
|
paragraphs of text in new or existing documents. When working with PowerPoint
|
|
presentations, slides can be added or removed; shapes inside slides can also
|
|
be added or removed. When working with Word documents, a cursor can be used
|
|
to help insert or delete content at a specific location in the document.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-snakecase
|
|
(package
|
|
(name "r-snakecase")
|
|
(version "0.9.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "snakecase" version))
|
|
(sha256
|
|
(base32
|
|
"1g6xai53dl24ws0mwhqrkcv583ziaq505cv3z8v5dhjgy98kilyj"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-stringi" ,r-stringi)
|
|
("r-stringr" ,r-stringr)))
|
|
(home-page "https://github.com/Tazinho/snakecase")
|
|
(synopsis "Convert strings into any case")
|
|
(description
|
|
"This package provides a consistent, flexible and easy to use tool to
|
|
parse and convert strings into cases like snake or camel among others.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-prediction
|
|
(package
|
|
(name "r-prediction")
|
|
(version "0.3.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "prediction" version))
|
|
(sha256
|
|
(base32
|
|
"19d7312f5lkqfglfvlgssnvyw7gl161s0xradcry44r1i6qp05j1"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-data-table" ,r-data-table)))
|
|
(home-page "https://github.com/leeper/prediction")
|
|
(synopsis "Tidy, type-safe prediction methods")
|
|
(description
|
|
"This package provides the @code{prediction()} function, a type-safe
|
|
alternative to @code{predict()} that always returns a data frame. The package
|
|
currently supports common model types (e.g., @code{\"lm\"}, @code{\"glm\"})
|
|
from the @code{stats} package, as well as numerous other model classes from
|
|
other add-on packages.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-sjlabelled
|
|
(package
|
|
(name "r-sjlabelled")
|
|
(version "1.0.13")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sjlabelled" version))
|
|
(sha256
|
|
(base32
|
|
"0xizj7mrhnbn8kwjgm076si9w68a7lgrx4vj1sbqmv9jx055h8wv"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-broom" ,r-broom)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-haven" ,r-haven)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-prediction" ,r-prediction)
|
|
("r-purrr" ,r-purrr)
|
|
("r-rlang" ,r-rlang)
|
|
("r-snakecase" ,r-snakecase)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyselect" ,r-tidyselect)))
|
|
(home-page "https://github.com/strengejacke/sjlabelled")
|
|
(synopsis "Labelled data utility functions")
|
|
(description
|
|
"This package provides a collection of functions dealing with labelled
|
|
data, like reading and writing data between R and other statistical software
|
|
packages. This includes easy ways to get, set or change value and variable
|
|
label attributes, to convert labelled vectors into factors or numeric (and
|
|
vice versa), or to deal with multiple declared missing values.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-sjmisc
|
|
(package
|
|
(name "r-sjmisc")
|
|
(version "2.7.4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "sjmisc" version))
|
|
(sha256
|
|
(base32
|
|
"11cy09k1d2y5wwqvafqxr01hzk4x68ji2pqlwj7fnpw27i3ap4q4"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-broom" ,r-broom)
|
|
("r-crayon" ,r-crayon)
|
|
("r-dplyr" ,r-dplyr)
|
|
("r-haven" ,r-haven)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-pillar" ,r-pillar)
|
|
("r-purrr" ,r-purrr)
|
|
("r-rlang" ,r-rlang)
|
|
("r-sjlabelled" ,r-sjlabelled)
|
|
("r-stringdist" ,r-stringdist)
|
|
("r-stringr" ,r-stringr)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyr" ,r-tidyr)
|
|
("r-tidyselect" ,r-tidyselect)))
|
|
(home-page "https://github.com/strengejacke/sjmisc")
|
|
(synopsis "Data and variable transformation functions")
|
|
(description
|
|
"This package is a collection of miscellaneous utility functions,
|
|
supporting data transformation tasks like recoding, dichotomizing or grouping
|
|
variables, setting and replacing missing values. The data transformation
|
|
functions also support labelled data, and all integrate seamlessly into a
|
|
tidyverse workflow.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-nortest
|
|
(package
|
|
(name "r-nortest")
|
|
(version "1.0-4")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "nortest" version))
|
|
(sha256
|
|
(base32
|
|
"17r0wpz72z9312c70nwi1i1kp1v9fm1h6jg7q5cx1mc1h420m1d3"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/nortest/")
|
|
(synopsis "Tests for normality")
|
|
(description
|
|
"This package provides five omnibus tests for testing the composite
|
|
hypothesis of normality.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-moonbook
|
|
(package
|
|
(name "r-moonbook")
|
|
(version "0.2.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "moonBook" version))
|
|
(sha256
|
|
(base32
|
|
"0hys56mwbm776ff7dibi8wzyf69qiais9rs1jazv79lk6h56s9s6"))))
|
|
(properties `((upstream-name . "moonBook")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-magrittr" ,r-magrittr)
|
|
("r-nortest" ,r-nortest)
|
|
("r-purrr" ,r-purrr)
|
|
("r-sjmisc" ,r-sjmisc)
|
|
("r-stringr" ,r-stringr)
|
|
("r-survival" ,r-survival)))
|
|
(home-page "https://github.com/cardiomoon/moonBook")
|
|
(synopsis "Functions and datasets for the book by Keon-Woong Moon")
|
|
(description
|
|
"This package provides several analysis-related functions for the book
|
|
entitled \"R statistics and graph for medical articles\" (written in Korean),
|
|
version 1, by Keon-Woong Moon with Korean demographic data with several plot
|
|
functions.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-flextable
|
|
(package
|
|
(name "r-flextable")
|
|
(version "0.4.5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "flextable" version))
|
|
(sha256
|
|
(base32
|
|
"09j2y0z7rkc0w1cl9pp1cpk6fnzzfr6245mxa3ca42z9k2cy2jfl"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-gdtools" ,r-gdtools)
|
|
("r-htmltools" ,r-htmltools)
|
|
("r-knitr" ,r-knitr)
|
|
("r-officer" ,r-officer)
|
|
("r-r6" ,r-r6)
|
|
("r-rmarkdown" ,r-rmarkdown)
|
|
("r-stringr" ,r-stringr)
|
|
("r-xml2" ,r-xml2)))
|
|
(home-page "https://davidgohel.github.io/flextable")
|
|
(synopsis "Functions for tabular reporting")
|
|
(description
|
|
"This package provides tools to create pretty tables for HTML documents
|
|
and other formats. Functions are provided to let users create tables, modify
|
|
and format their content. It extends the @code{officer} package and can be
|
|
used within R markdown documents when rendering to HTML and to Word
|
|
documents.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-writexl
|
|
(package
|
|
(name "r-writexl")
|
|
(version "1.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "writexl" version))
|
|
(sha256
|
|
(base32
|
|
"0r2v12dc4zqmr1agp6vbw0fc48i278018684x84psjjqfmnv14cf"))))
|
|
(build-system r-build-system)
|
|
(inputs `(("zlib" ,zlib)))
|
|
(home-page "https://github.com/ropensci/writexl")
|
|
(synopsis "Export data frames to xlsx format")
|
|
(description
|
|
"This package provides a data frame to xlsx exporter based on
|
|
libxlsxwriter.")
|
|
(license license:bsd-2)))
|
|
|
|
(define-public r-biasedurn
|
|
(package
|
|
(name "r-biasedurn")
|
|
(version "1.07")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "BiasedUrn" version))
|
|
(sha256
|
|
(base32
|
|
"13i2lgfnjhlbbm2yxfc2l5hswqw6x03pwba5csjmirv8kpjw4xr3"))))
|
|
(properties `((upstream-name . "BiasedUrn")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/BiasedUrn/")
|
|
(synopsis "Biased Urn model distributions")
|
|
(description
|
|
"This package provides statistical models of biased sampling in the form
|
|
of univariate and multivariate noncentral hypergeometric distributions,
|
|
including Wallenius' noncentral hypergeometric distribution and Fisher's
|
|
noncentral hypergeometric distribution (also called extended hypergeometric
|
|
distribution).")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-goplot
|
|
(package
|
|
(name "r-goplot")
|
|
(version "1.0.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "GOplot" version))
|
|
(sha256
|
|
(base32
|
|
"1y8dv0kbzpr9za91njw0x233vx5d13vqml9hmpddcyi9s6va5nix"))))
|
|
(properties `((upstream-name . "GOplot")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggdendro" ,r-ggdendro)
|
|
("r-ggplot2" ,r-ggplot2)
|
|
("r-gridextra" ,r-gridextra)
|
|
("r-rcolorbrewer" ,r-rcolorbrewer)))
|
|
(home-page "https://github.com/wencke/wencke.github.io")
|
|
(synopsis "Visualization of functional analysis data")
|
|
(description
|
|
"This package provides an implementation of multilayered visualizations
|
|
for enhanced graphical representation of functional analysis data. It
|
|
combines and integrates omics data derived from expression and functional
|
|
annotation enrichment analyses. Its plotting functions have been developed
|
|
with an hierarchical structure in mind: starting from a general overview to
|
|
identify the most enriched categories (modified bar plot, bubble plot) to a
|
|
more detailed one displaying different types of relevant information for the
|
|
molecules in a given set of categories (circle plot, chord plot, cluster plot,
|
|
Venn diagram, heatmap).")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-getopt
|
|
(package
|
|
(name "r-getopt")
|
|
(version "1.20.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "getopt" version))
|
|
(sha256
|
|
(base32
|
|
"13p35lbpy7i578752fa71sbfvcsqw5qfa9p6kf8b5m3c5p9i4v1x"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/trevorld/getopt")
|
|
(synopsis "Command-line option processor for R")
|
|
(description
|
|
"This package is designed to be used with Rscript to write shebang
|
|
scripts that accept short and long options. Many users will prefer to
|
|
use the packages @code{optparse} or @code{argparse} which add extra
|
|
features like automatically generated help options and usage texts,
|
|
support for default values, positional argument support, etc.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-findpython
|
|
(package
|
|
(name "r-findpython")
|
|
(version "1.0.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "findpython" version))
|
|
(sha256
|
|
(base32
|
|
"1y08jk2ffmkf9zpwiz2xymjhfwqvls9vzsnq62v278ghw9d571jl"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://github.com/trevorld/findpython")
|
|
(synopsis "Functions to find an acceptable Python binary")
|
|
(description
|
|
"This package was designed to find an acceptable Python binary that
|
|
matches version and feature constraints.")
|
|
(license license:expat)))
|
|
|
|
;; This in not the same as "r-argparser"
|
|
(define-public r-argparse
|
|
(package
|
|
(name "r-argparse")
|
|
(version "1.1.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "argparse" version))
|
|
(sha256
|
|
(base32
|
|
"0fzrbj87b274vf96azdnsjxk2nf45d5wy58vzmlah4b4h7q4j524"))))
|
|
(build-system r-build-system)
|
|
(inputs `(("python" ,python)))
|
|
(propagated-inputs
|
|
`(("r-findpython" ,r-findpython)
|
|
("r-getopt" ,r-getopt)
|
|
("r-jsonlite" ,r-jsonlite)
|
|
("r-proto" ,r-proto)))
|
|
(home-page "https://github.com/trevorld/argparse")
|
|
(synopsis "Command line optional and positional argument parser")
|
|
(description
|
|
"This package provides a command line parser to be used with Rscript to
|
|
write shebang scripts that gracefully accept positional and optional arguments
|
|
and automatically generate usage notices.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-hash
|
|
(package
|
|
(name "r-hash")
|
|
(version "2.2.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "hash" version))
|
|
(sha256
|
|
(base32
|
|
"0mkx59bmni3b283znvbndnkbar85fzavzdfgmwrhskidsqcz34yz"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/hash/")
|
|
(synopsis "Implementation of hash/associated arrays/dictionaries")
|
|
(description
|
|
"This package implements a data structure similar to hashes in Perl and
|
|
dictionaries in Python but with a purposefully R flavor. For objects of
|
|
appreciable size, access using hashes outperforms native named lists and
|
|
vectors.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-orddom
|
|
(package
|
|
(name "r-orddom")
|
|
(version "3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "orddom" version))
|
|
(sha256
|
|
(base32
|
|
"165axs15fvwhrp89xd87l81q3h2qjll1vrwcsap645cwvb85nwsh"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-psych" ,r-psych)))
|
|
(home-page "https://cran.r-project.org/web/packages/orddom/")
|
|
(synopsis "Ordinal dominance statistics")
|
|
(description
|
|
"This package provides tools to compute ordinal, statistics and effect
|
|
sizes as an alternative to mean comparison: Cliff's delta or success rate
|
|
difference (SRD), Vargha and Delaney's A or the Area Under a Receiver
|
|
Operating Characteristic Curve (AUC), the discrete type of McGraw & Wong's
|
|
Common Language Effect Size (CLES) or Grissom & Kim's Probability of
|
|
Superiority (PS), and the Number needed to treat (NNT) effect size. Moreover,
|
|
comparisons to Cohen's d are offered based on Huberty & Lowman's Percentage of
|
|
Group (Non-)Overlap considerations.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-doby
|
|
(package
|
|
(name "r-doby")
|
|
(version "4.6-2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "doBy" version))
|
|
(sha256
|
|
(base32
|
|
"02vbv9nfgywg6lsiialkmfnax5z3rkyb9nr8j9l2cp8xi6ml95mb"))))
|
|
(properties `((upstream-name . "doBy")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-dplyr" ,r-dplyr)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-mass" ,r-mass)
|
|
("r-matrix" ,r-matrix)
|
|
("r-plyr" ,r-plyr)))
|
|
(home-page "http://people.math.aau.dk/~sorenh/software/doBy/")
|
|
(synopsis "Groupwise statistics, LSmeans, linear contrasts, and utilities")
|
|
(description
|
|
"This package contains:
|
|
|
|
@itemize
|
|
@item facilities for working with grouped data: @code{do}
|
|
something to data stratified @code{by} some variables.
|
|
@item implementations of least-squares means, general linear contrasts, and
|
|
@item miscellaneous other utilities.
|
|
@end itemize\n")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-refgenome
|
|
(package
|
|
(name "r-refgenome")
|
|
(version "1.7.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "refGenome" version))
|
|
(sha256
|
|
(base32
|
|
"15p0ra2p1pwhy5ixbhsz1g79c5sc2aap4i4c8kil0m2syg9y45sn"))))
|
|
(properties `((upstream-name . "refGenome")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-dbi" ,r-dbi)
|
|
("r-doby" ,r-doby)
|
|
("r-rsqlite" ,r-rsqlite)))
|
|
(home-page "https://cran.r-project.org/web/packages/refGenome/")
|
|
(synopsis
|
|
"Gene and splice site annotation using annotation data from Ensembl and UCSC")
|
|
(description
|
|
"This package contains functionality for importing and managing of
|
|
downloaded genome annotation data from the Ensembl genome browser (European
|
|
Bioinformatics Institute) and from the UCSC genome browser (University of
|
|
California, Santa Cruz) and annotation routines for genomic positions and
|
|
splice site positions.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-basix
|
|
(package
|
|
(name "r-basix")
|
|
(version "1.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "BASIX" version))
|
|
(sha256
|
|
(base32
|
|
"18dkvv1iwskfnlpl6xridcgqpalbbpm2616mvc3hfrc0b26v01id"))))
|
|
(properties `((upstream-name . "BASIX")))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/BASIX/")
|
|
(synopsis "Efficient C/C++ toolset for R")
|
|
(description
|
|
"BASIX provides some efficient C/C++ implementations of native R
|
|
procedures to speed up calculations in R.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-blockfest
|
|
(package
|
|
(name "r-blockfest")
|
|
(version "1.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "BlockFeST" version))
|
|
(sha256
|
|
(base32
|
|
"0hj7a5as7nxbgjac7lbj6qfwffx3g8x8phpf9a55f1c9cdzi73a5"))))
|
|
(properties `((upstream-name . "BlockFeST")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-basix" ,r-basix)))
|
|
(home-page "https://cran.r-project.org/web/packages/BlockFeST/")
|
|
(synopsis "Bayesian calculation of region-specific fixation index")
|
|
(description
|
|
"This package provides an R implementation of an extension of the
|
|
BayeScan software for codominant markers, adding the option to group
|
|
individual SNPs into pre-defined blocks. A typical application of this new
|
|
approach is the identification of genomic regions, genes, or gene sets
|
|
containing one or more SNPs that evolved under directional selection.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-proc
|
|
(package
|
|
(name "r-proc")
|
|
(version "1.12.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "pROC" version))
|
|
(sha256
|
|
(base32
|
|
"05ad69a6fxy9k903cw3h4q59ch2jv6qfg9yjdbw3cgiiazcafrlj"))))
|
|
(properties `((upstream-name . "pROC")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-plyr" ,r-plyr)
|
|
("r-rcpp" ,r-rcpp)))
|
|
(home-page "http://expasy.org/tools/pROC/")
|
|
(synopsis "Display and analyze ROC curves")
|
|
(description
|
|
"This package provides tools for visualizing, smoothing and comparing
|
|
receiver operating characteristic (ROC curves). The area under the
|
|
curve (AUC) can be compared with statistical tests based on U-statistics or
|
|
bootstrap. Confidence intervals can be computed for (p)AUC or ROC curves.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-rootsolve
|
|
(package
|
|
(name "r-rootsolve")
|
|
(version "1.7")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "rootSolve" version))
|
|
(sha256
|
|
(base32
|
|
"08ic6ggcc5dw4nv9xsqkm3vnvswmxyhnqnv1rdjv1h2gy1ivpcq8"))))
|
|
(properties `((upstream-name . "rootSolve")))
|
|
(build-system r-build-system)
|
|
(native-inputs `(("gfortran" ,gfortran)))
|
|
(home-page "https://cran.r-project.org/web/packages/rootSolve/")
|
|
(synopsis "Tools for the analysis of ordinary differential equations")
|
|
(description
|
|
"This package provides routines to find the root of nonlinear functions,
|
|
and to perform steady-state and equilibrium analysis of @dfn{ordinary
|
|
differential equations} (ODE). It includes routines that:
|
|
|
|
@enumerate
|
|
@item generate gradient and jacobian matrices (full and banded),
|
|
@item find roots of non-linear equations by the Newton-Raphson method,
|
|
@item estimate steady-state conditions of a system of (differential) equations
|
|
in full, banded or sparse form, using the Newton-Raphson method, or by
|
|
dynamically running,
|
|
@item solve the steady-state conditions for uni- and multicomponent 1-D, 2-D,
|
|
and 3-D partial differential equations, that have been converted to ordinary
|
|
differential equations by numerical differencing (using the method-of-lines
|
|
approach).
|
|
@end enumerate\n")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-abcanalysis
|
|
(package
|
|
(name "r-abcanalysis")
|
|
(version "1.2.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ABCanalysis" version))
|
|
(sha256
|
|
(base32 "0wac1ksmnxa36v99ca4hv8k0rsh3igwpcllmlv9wf7i9kgqviqwi"))))
|
|
(properties `((upstream-name . "ABCanalysis")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-plotrix" ,r-plotrix)))
|
|
(home-page "https://www.uni-marburg.de/fb12/arbeitsgruppen/datenbionik/software-en/")
|
|
(synopsis "Computed ABC Analysis")
|
|
(description
|
|
"Multivariate data sets often differ in several factors or derived statistical
|
|
parameters, which have to be selected for a valid interpretation. Basing this
|
|
selection on traditional statistical limits leads occasionally to the perception
|
|
of losing information from a data set. This package provides tools to calculate
|
|
these limits on the basis of the mathematical properties of the distribution of
|
|
the analyzed items.")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-slam
|
|
(package
|
|
(name "r-slam")
|
|
(version "0.1-43")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "slam" version))
|
|
(sha256
|
|
(base32 "0hy4qzngcgafxxr6ld7n9a9wy979ji998gpcc32vidwyab66dj5h"))))
|
|
(build-system r-build-system)
|
|
(home-page "https://cran.r-project.org/web/packages/slam/")
|
|
(synopsis "Sparse lightweight arrays and matrices")
|
|
(description
|
|
"This package contains data structures and algorithms for sparse arrays and matrices,
|
|
based on index arrays and simple triplet representations, respectively.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-manipulatewidget
|
|
(package
|
|
(name "r-manipulatewidget")
|
|
(version "0.10.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "manipulateWidget" version))
|
|
(sha256
|
|
(base32 "1zagrbwkn2d50zzw8i2vyb1hsq4cydmfsqiy1a2qlp6zrv8a6q9x"))))
|
|
(properties
|
|
`((upstream-name . "manipulateWidget")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-base64enc" ,r-base64enc)
|
|
("r-codetools" ,r-codetools)
|
|
("r-htmltools" ,r-htmltools)
|
|
("r-htmlwidgets" ,r-htmlwidgets)
|
|
("r-knitr" ,r-knitr)
|
|
("r-miniui" ,r-miniui)
|
|
("r-shiny" ,r-shiny)
|
|
("r-webshot" ,r-webshot)))
|
|
(home-page "https://github.com/rte-antares-rpackage/manipulateWidget/")
|
|
(synopsis "Add even more interactivity to interactive charts")
|
|
(description
|
|
"This package lets you create in just a few lines of R code a nice user interface to
|
|
modify the data or the graphical parameters of one or multiple interactive
|
|
charts. It is useful to quickly explore visually some data or for package
|
|
developers to generate user interfaces easy to maintain.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-a3
|
|
(package
|
|
(name "r-a3")
|
|
(version "1.0.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "A3" version))
|
|
(sha256
|
|
(base32 "017hq9pjsv1h9i7cqk5cfx27as54shlhdsdvr6jkhb8jfkpdb6cw"))))
|
|
(properties `((upstream-name . "A3")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-pbapply" ,r-pbapply)
|
|
("r-xtable" ,r-xtable)))
|
|
(home-page "https://cran.r-project.org/web/packages/A3/")
|
|
(synopsis "Error metrics for predictive models")
|
|
(description
|
|
"This package supplies tools for tabulating and analyzing the results of predictive
|
|
models. The methods employed are applicable to virtually any predictive model
|
|
and make comparisons between different methodologies straightforward.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-infotheo
|
|
(package
|
|
(name "r-infotheo")
|
|
(version "1.2.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "infotheo" version))
|
|
(sha256
|
|
(base32
|
|
"18xacczfq3z3xpy434js4nf3l19lczngzd0lq26wh22pvg1yniwv"))))
|
|
(build-system r-build-system)
|
|
(home-page "http://homepage.meyerp.com/software")
|
|
(synopsis "Information-theoretic measures")
|
|
(description
|
|
"This package implements various measures of information theory based on
|
|
several entropy estimators.")
|
|
(license license:gpl3+)))
|
|
|
|
(define-public r-abcoptim
|
|
(package
|
|
(name "r-abcoptim")
|
|
(version "0.15.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ABCoptim" version))
|
|
(sha256
|
|
(base32 "1ih0xk88qhsmpvnxf56041wx5sk8as2f4f2gdnpnwdym9mbr9n4b"))))
|
|
(properties `((upstream-name . "ABCoptim")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-rcpp" ,r-rcpp)))
|
|
(home-page "https://github.com/gvegayon/ABCoptim/")
|
|
(synopsis "Optimization of Artificial Bee Colony algorithm")
|
|
(description
|
|
"Artificial Bee Colony (ABC) is one of the most recently defined algorithms by Dervis
|
|
Karaboga in 2005, motivated by the intelligent behavior of honey bees. It is as
|
|
simple as Particle Swarm Optimization (PSO) and Differential Evolution (DE)
|
|
algorithms, and uses only common control parameters such as colony size and
|
|
maximum cycle number. The @code{r-abcoptim} implements the Artificial bee
|
|
colony optimization algorithm @url{http://mf.erciyes.edu.tr/abc/pub/tr06_2005.pdf}.
|
|
This version is a work-in-progress and is written in R code.")
|
|
(license license:expat)))
|
|
|
|
(define-public r-abcp2
|
|
(package
|
|
(name "r-abcp2")
|
|
(version "1.2")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ABCp2" version))
|
|
(sha256
|
|
(base32 "1s2skkxpzss7c29i8600psgrp0hl46jcrxqrmy2b4db8hc0kcnbx"))))
|
|
(properties `((upstream-name . "ABCp2")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs `(("r-mass" ,r-mass)))
|
|
(home-page "https://cran.r-project.org/web/packages/ABCp2/")
|
|
(synopsis "Approximate Bayesian Computational Model for Estimating P2")
|
|
(description
|
|
"This package tests the goodness of fit of a distribution of offspring to the Normal,
|
|
Poisson, and Gamma distribution and estimates the proportional paternity of the
|
|
second male (P2) based on the best fit distribution.")
|
|
(license license:gpl2)))
|
|
|
|
(define-public r-abcrf
|
|
(package
|
|
(name "r-abcrf")
|
|
(version "1.7.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "abcrf" version))
|
|
(sha256
|
|
(base32 "06vy3inikrr9hv36q4djhrgzi9zizdfnhz17wpra8kadmr7qj441"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-mass" ,r-mass)
|
|
("r-matrixstats" ,r-matrixstats)
|
|
("r-ranger" ,r-ranger)
|
|
("r-rcpp" ,r-rcpp)
|
|
("r-rcpparmadillo" ,r-rcpparmadillo)
|
|
("r-readr" ,r-readr)
|
|
("r-stringr" ,r-stringr)))
|
|
(home-page "https://cran.r-project.org/web/packages/abcrf/")
|
|
(synopsis "Approximate bayesian computation via random forests")
|
|
(description
|
|
"This package performs approximate bayesian computation (ABC) model choice and
|
|
parameter inference via random forests. This machine learning tool named random
|
|
forests (RF) can conduct selection among the highly complex models covered by
|
|
ABC algorithms.")
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(license license:gpl2+)))
|
|
|
|
(define-public r-abctools
|
|
(package
|
|
(name "r-abctools")
|
|
(version "1.1.3")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "abctools" version))
|
|
(sha256
|
|
(base32 "07s9dg10i8lsxl73b4n2hynca2fjgb0ykb0dz8c3zv6cgw3cyx97"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-abc" ,r-abc)
|
|
("r-abind" ,r-abind)
|
|
("r-hmisc" ,r-hmisc)
|
|
("r-plyr" ,r-plyr)))
|
|
(home-page "https://github.com/dennisprangle/abctools/")
|
|
(synopsis "Tools for ABC analyses")
|
|
(description
|
|
"This @code{r-abctools} package provides tools for approximate Bayesian computation
|
|
including summary statistic selection and assessing coverage. This includes
|
|
recent dimension reduction algorithms to tune the choice of summary statistics,
|
|
and coverage methods to tune the choice of threshold.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ggstance
|
|
(package
|
|
(name "r-ggstance")
|
|
(version "0.3.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggstance" version))
|
|
(sha256
|
|
(base32 "0v7f3xdaaridw6d4jvnsfwxmpjrasvx5vl555wsrn50aah17fkvh"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-plyr" ,r-plyr)
|
|
("r-rlang" ,r-rlang)
|
|
("r-withr" ,r-withr)))
|
|
(home-page "https://cran.r-project.org/web/packages/ggstance/")
|
|
(synopsis "Horizontal and vertical versions of @code{r-ggplot2}")
|
|
(description
|
|
"This package is a @code{r-ggplot2} extension that provides flipped components:
|
|
@enumerate
|
|
@item horizontal versions of @code{r-ggplot2} stats and @code{r-ggplot2} geoms;
|
|
@item vertical versions of @code{r-ggplot2} positions.
|
|
@end enumerate")
|
|
(license license:gpl3)))
|
|
|
|
(define-public r-mosaiccore
|
|
(package
|
|
(name "r-mosaiccore")
|
|
(version "0.6.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "mosaicCore" version))
|
|
(sha256
|
|
(base32 "1klw97h6lchw1cpcl8s637ikcl428cckmjq0czi7mibh9q9mw72z"))))
|
|
(properties `((upstream-name . "mosaicCore")))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-dplyr" ,r-dplyr)
|
|
("r-lazyeval" ,r-lazyeval)
|
|
("r-mass" ,r-mass)
|
|
("r-rlang" ,r-rlang)
|
|
("r-tidyr" ,r-tidyr)))
|
|
(home-page "https://github.com/ProjectMOSAIC/mosaicCore/")
|
|
(synopsis "Common utilities for mosaic family packages")
|
|
(description
|
|
"Common utilities used in other Mosaic family packages are collected here.")
|
|
(license license:gpl2+)))
|
|
|
|
(define-public r-ggformula
|
|
(package
|
|
(name "r-ggformula")
|
|
(version "0.9.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (cran-uri "ggformula" version))
|
|
(sha256
|
|
(base32 "1pmpdfjfbrc6kcpq70cr1kbj2qy711hw940g2aiis6l443z706kh"))))
|
|
(build-system r-build-system)
|
|
(propagated-inputs
|
|
`(("r-ggplot2" ,r-ggplot2)
|
|
("r-ggstance" ,r-ggstance)
|
|
("r-magrittr" ,r-magrittr)
|
|
("r-mosaiccore" ,r-mosaiccore)
|
|
("r-rlang" ,r-rlang)
|
|
("r-stringr" ,r-stringr)
|
|
("r-tibble" ,r-tibble)
|
|
("r-tidyr" ,r-tidyr)))
|
|
(home-page "https://github.com/ProjectMOSAIC/ggformula/")
|
|
(synopsis "Formula interface for the @code{r-ggplot2}")
|
|
(description
|
|
"The @code{r-ggformula} introduces a family of graphics functions, gf_point(),
|
|
gf_density(), and so on, bring the formula interface to ggplot(). This captures
|
|
and extends the excellent simplicity of the lattice-graphics formula interface,
|
|
while providing the intuitive capabilities of @code{r-ggplot2}.")
|
|
(license license:expat)))
|