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;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015 Vicente Vera Parra <vicentemvp@gmail.com>
;;; Copyright © 2016 Andreas Enge <andreas@enge.fr>
;;; Copyright © 2016, 2017, 2019, 2020 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2016 Pjotr Prins <pjotr.guix@thebird.nl>
;;; Copyright © 2016 Roel Janssen <roel@gnu.org>
;;; Copyright © 2016 Ben Woodcroft <donttrustben@gmail.com>
;;; Copyright © 2016, 2017 Raoul Bonnal <ilpuccio.febo@gmail.com>
;;; Copyright © 2017 Kyle Meyer <kyle@kyleam.com>
;;; Copyright © 2017, 2018, 2019, 2020 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Alex Kost <alezost@gmail.com>
;;; Copyright © 2018 Alex Branham <alex.branham@gmail.com>
;;; Copyright © 2020 Tim Howes <timhowes@lavabit.com>
;;;
;;; This file is part of GNU Guix.
;;;
;;; GNU Guix is free software; you can redistribute it and/or modify it
;;; under the terms of the GNU General Public License as published by
;;; the Free Software Foundation; either version 3 of the License, or (at
;;; your option) any later version.
;;;
;;; GNU Guix is distributed in the hope that it will be useful, but
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
;;; GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
(define-module (gnu packages statistics)
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix packages)
#:use-module (guix download)
#:use-module (guix hg-download)
#:use-module (guix git-download)
#:use-module (guix utils)
#:use-module (guix build-system ant)
#:use-module (guix build-system gnu)
#:use-module (guix build-system r)
#:use-module (guix build-system python)
#:use-module (guix build-system trivial)
#:use-module (gnu packages)
#:use-module (gnu packages algebra)
#:use-module (gnu packages autotools)
#:use-module (gnu packages bash)
#:use-module (gnu packages check)
#:use-module (gnu packages compression)
#:use-module (gnu packages cran)
#:use-module (gnu packages curl)
#:use-module (gnu packages emacs)
#:use-module (gnu packages emacs-xyz)
#:use-module (gnu packages fontutils)
#:use-module (gnu packages gcc)
#:use-module (gnu packages gtk)
#:use-module (gnu packages gettext)
#:use-module (gnu packages glib)
#:use-module (gnu packages haskell-xyz)
#:use-module (gnu packages icu4c)
#:use-module (gnu packages image)
#:use-module (gnu packages java)
#:use-module (gnu packages libffi)
#:use-module (gnu packages machine-learning)
#:use-module (gnu packages maths)
#:use-module (gnu packages multiprecision)
#:use-module (gnu packages pcre)
#:use-module (gnu packages perl)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages python)
#:use-module (gnu packages python-science)
#:use-module (gnu packages python-xyz)
#:use-module (gnu packages readline)
#:use-module (gnu packages sphinx)
#:use-module (gnu packages ssh)
#:use-module (gnu packages tcl)
#:use-module (gnu packages tex)
#:use-module (gnu packages texinfo)
#:use-module (gnu packages time)
#:use-module (gnu packages tls)
#:use-module (gnu packages base)
#:use-module (gnu packages version-control)
#:use-module (gnu packages web)
#:use-module (gnu packages xml)
#:use-module (gnu packages xorg)
#:use-module (srfi srfi-1))
(define-public pspp
(package
(name "pspp")
(version "1.2.0")
(source
(origin
(method url-fetch)
(uri (string-append "mirror://gnu/pspp/pspp-"
version ".tar.gz"))
(sha256
(base32
"07pp27zycrb5x927jwaj9r3q7hy915jh51xs85zxby6gfiwl63m5"))))
(build-system gnu-build-system)
(inputs
`(("cairo" ,cairo)
("gettext" ,gettext-minimal)
("gsl" ,gsl)
("libxml2" ,libxml2)
("pango" ,pango)
("readline" ,readline)
("gtk" ,gtk+)
("gtksourceview" ,gtksourceview)
("spread-sheet-widget" ,spread-sheet-widget)
("zlib" ,zlib)))
(native-inputs
`(("autoconf" ,autoconf) ;for tests
("glib" ,glib "bin") ;for glib-genmarshal
("perl" ,perl)
("pkg-config" ,pkg-config)
("python" ,python-2) ;for tests
("texinfo" ,texinfo)))
(home-page "https://www.gnu.org/software/pspp/")
(synopsis "Statistical analysis")
(description
"GNU PSPP is a statistical analysis program. It can perform
descriptive statistics, T-tests, linear regression and non-parametric tests.
It features both a graphical interface as well as command-line input. PSPP
is designed to interoperate with Gnumeric, LibreOffice and OpenOffice. Data
can be imported from spreadsheets, text files and database sources and it can
be output in text, PostScript, PDF or HTML.")
(license license:gpl3+)))
(define-public jags
(package
(name "jags")
(version "4.3.0")
(source (origin
(method url-fetch)
(uri (string-append "mirror://sourceforge/mcmc-jags/JAGS/"
(version-major version) ".x/Source/"
"JAGS-" version ".tar.gz"))
(sha256
(base32
"1z3icccg2ic56vmhyrpinlsvpq7kcaflk1731rgpvz9bk1bxvica"))))
(build-system gnu-build-system)
(home-page "http://mcmc-jags.sourceforge.net/")
(native-inputs
`(("gfortran" ,gfortran)
("lapack" ,lapack)))
(synopsis "Gibbs sampler")
(description "JAGS is Just Another Gibbs Sampler. It is a program for
analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)
simulation not wholly unlike BUGS. JAGS was written with three aims in mind:
@enumerate
@item To have a cross-platform engine for the BUGS language;
@item To be extensible, allowing users to write their own functions,
distributions and samplers;
@item To be a platform for experimentation with ideas in Bayesian modelling.
@end enumerate\n")
(license license:gpl2)))
(define-public libxls
(package
(name "libxls")
(version "1.5.3")
(source
(origin
(method url-fetch)
(uri (string-append "https://github.com/libxls/libxls/releases/download/"
"v" version "/libxls-" version ".tar.gz"))
(sha256
(base32 "0rl513wpq5qh7wkmdk4g9c68rzffv3mcbz48p4xyg4969zrx8lnm"))))
(build-system gnu-build-system)
(home-page "https://github.com/libxls/libxls")
(synopsis "Read binary (.xls) Excel spreadsheet files")
(description
"libxls is a C library to read .xls spreadsheet files in the binary OLE
BIFF8 format as created by Excel 97 and later versions. It cannot write them.
This package also provides @command{xls2csv} to export Excel files to CSV.")
(license license:bsd-2)))
;; Update this package together with the set of recommended packages: r-boot,
;; r-class, r-cluster, r-codetools, r-foreign, r-kernsmooth, r-lattice,
;; r-mass, r-matrix, r-mgcv, r-nlme, r-nnet, r-rpart, r-spatial, r-survival.
(define r-with-tests
(package
(name "r-with-tests")
(version "4.0.2")
(source (origin
(method url-fetch)
(uri (string-append "mirror://cran/src/base/R-"
(version-major version) "/R-"
version ".tar.gz"))
(sha256
(base32
"0xdy3dy2bzdiba8z94hjykyra8si8a5q15s0bri7c26scjrymg6k"))))
(build-system gnu-build-system)
(arguments
`(#:disallowed-references (,tzdata-for-tests)
#:make-flags
(list (string-append "LDFLAGS=-Wl,-rpath="
(assoc-ref %outputs "out")
"/lib/R/lib")
;; This affects the embedded timestamp of only the core packages.
"PKG_BUILT_STAMP=1970-01-01")
#:phases
(modify-phases %standard-phases
(add-before 'configure 'do-not-compress-serialized-files
(lambda* (#:key inputs #:allow-other-keys)
;; This ensures that Guix can detect embedded store references;
;; see bug #28157 for details.
(substitute* "src/library/base/makebasedb.R"
(("compress = TRUE") "compress = FALSE"))
#t))
(add-before 'configure 'patch-uname
(lambda* (#:key inputs #:allow-other-keys)
(let ((uname-bin (string-append (assoc-ref inputs "coreutils")
"/bin/uname")))
(substitute* "src/scripts/R.sh.in"
(("uname") uname-bin)))
#t))
(add-after 'unpack 'build-reproducibly
(lambda _
;; The documentation contains time stamps to demonstrate
;; documentation generation in different phases.
(substitute* "src/library/tools/man/Rd2HTML.Rd"
(("\\\\%Y-\\\\%m-\\\\%d at \\\\%H:\\\\%M:\\\\%S")
"(removed for reproducibility)"))
;; Remove timestamp from tracing environment. This fixes
;; reproducibility of "methods.rd{b,x}".
(substitute* "src/library/methods/R/trace.R"
(("dateCreated = Sys.time\\(\\)")
"dateCreated = as.POSIXct(\"1970-1-1 00:00:00\", tz = \"UTC\")"))
;; Ensure that gzipped files are reproducible.
(substitute* '("src/library/grDevices/Makefile.in"
"doc/manual/Makefile.in")
(("R_GZIPCMD\\)" line)
(string-append line " -n")))
;; The "srcfile" procedure in "src/library/base/R/srcfile.R"
;; queries the mtime of a given file and records it in an object.
;; This is acceptable at runtime to detect stale source files,
;; but it destroys reproducibility at build time.
;; Similarly, the "srcfilecopy" procedure records the current
;; time. We change both of them to respect SOURCE_DATE_EPOCH.
(substitute* "src/library/base/R/srcfile.R"
(("timestamp <- (timestamp.*|file.mtime.*)" _ time)
(string-append "timestamp <- \
as.POSIXct(if (\"\" != Sys.getenv(\"SOURCE_DATE_EPOCH\")) {\
as.numeric(Sys.getenv(\"SOURCE_DATE_EPOCH\"))\
} else { " time "}, origin=\"1970-01-01\")\n")))
;; This library is installed using "install_package_description",
;; so we need to pass the "builtStamp" argument.
(substitute* "src/library/tools/Makefile.in"
(("(install_package_description\\(.*\"')\\)\"" line prefix)
(string-append prefix ", builtStamp='1970-01-01')\"")))
(substitute* "src/library/Recommended/Makefile.in"
(("INSTALL_OPTS =" m)
(string-append m " --built-timestamp=1970-01-01" m)))
;; R bundles an older version of help2man, which does not respect
;; SOURCE_DATE_EPOCH. We cannot just use the latest help2man,
;; because that breaks a test.
(with-fluids ((%default-port-encoding "ISO-8859-1"))
(substitute* "tools/help2man.pl"
(("my \\$date = strftime \"%B %Y\", localtime" line)
(string-append line " 1"))))
#t))
(add-before 'build 'set-locales
(lambda _
(setlocale LC_ALL "C")
(setenv "LC_ALL" "C")
#t))
(add-before 'configure 'set-default-pager
;; Set default pager to "cat", because otherwise it is "false",
;; making "help()" print nothing at all.
(lambda _ (setenv "PAGER" "cat") #t))
(add-before 'check 'set-timezone
;; Some tests require the timezone to be set. However, the
;; timezone may not just be "UTC", or else a brittle regression
;; test in reg-tests-1d will fail.
(lambda* (#:key inputs #:allow-other-keys)
(setenv "TZ" "UTC+1")
(setenv "TZDIR"
(string-append (assoc-ref inputs "tzdata")
"/share/zoneinfo"))
#t))
(add-after 'build 'make-info
(lambda _ (invoke "make" "info")))
(add-after 'build 'install-info
(lambda _ (invoke "make" "install-info"))))
#:configure-flags
`(;; We build the recommended packages here, because they are needed in
;; order to run the test suite. We disable them in the r-minimal
;; package.
"--with-cairo"
"--with-blas=-lopenblas"
"--with-libpng"
"--with-jpeglib"
"--with-libtiff"
"--with-ICU"
"--with-tcltk"
,(string-append "--with-tcl-config="
(assoc-ref %build-inputs "tcl")
"/lib/tclConfig.sh")
,(string-append "--with-tk-config="
(assoc-ref %build-inputs "tk")
"/lib/tkConfig.sh")
"--enable-R-shlib"
"--enable-BLAS-shlib"
"--with-system-tre")))
;; R has some support for Java. When the JDK is available at configure
;; time environment variables pointing to the JDK will be recorded under
;; $R_HOME/etc and ./tools/getsp.java will be compiled which is used by "R
;; CMD javareconf". "R CMD javareconf" appears to only be used to update
;; the recorded environment variables in $R_HOME/etc. Refer to
;; https://cran.r-project.org/doc/manuals/r-release/R-admin.html#Java-support
;; for additional information.
;; As the JDK is a rather large input with only very limited effects on R,
;; we decided to drop it.
(native-inputs
`(("bzip2" ,bzip2)
("perl" ,perl)
("pkg-config" ,pkg-config)
("texinfo" ,texinfo) ; for building HTML manuals
("texlive" ,(texlive-union (list texlive-ae
texlive-inconsolata
texlive-fonts-ec
texlive-amsfonts
texlive-latex-base
texlive-latex-fancyvrb
texlive-latex-graphics
texlive-latex-hyperref
texlive-latex-oberdiek
texlive-latex-tools
texlive-latex-upquote
texlive-latex-url
texlive-latex-xkeyval)))
("tzdata" ,tzdata-for-tests)
("xz" ,xz)))
(inputs
`(;; We need not only cairo here, but pango to ensure that tests for the
;; "cairo" bitmapType plotting backend succeed.
("pango" ,pango)
("coreutils" ,coreutils)
("curl" ,curl)
("openblas" ,openblas)
("gfortran" ,gfortran)
("icu4c" ,icu4c)
("libjpeg" ,libjpeg-turbo)
("libpng" ,libpng)
("libtiff" ,libtiff)
("libxt" ,libxt)
("pcre2" ,pcre2)
("readline" ,readline)
;; This avoids a reference to the ungraftable static bash. R uses the
;; detected shell for the "system" procedure.
("bash" ,bash-minimal)
("tcl" ,tcl)
("tk" ,tk)
("which" ,which)
("zlib" ,zlib)))
(native-search-paths
(list (search-path-specification
(variable "R_LIBS_SITE")
(files (list "site-library/")))))
(home-page "https://www.r-project.org/")
(synopsis "Environment for statistical computing and graphics")
(description
"R is a language and environment for statistical computing and graphics.
It provides a variety of statistical techniques, such as linear and nonlinear
modeling, classical statistical tests, time-series analysis, classification
and clustering. It also provides robust support for producing
publication-quality data plots. A large amount of 3rd-party packages are
available, greatly increasing its breadth and scope.")
(license license:gpl3+)))
(define-public r-minimal
(package (inherit r-with-tests)
(name "r-minimal")
(arguments
`(#:tests? #f
,@(substitute-keyword-arguments (package-arguments r-with-tests)
((#:configure-flags flags)
;; Do not build the recommended packages. The build system creates
;; random temporary directories and embeds their names in some
;; package files. We build these packages with the r-build-system
;; instead.
`(cons "--without-recommended-packages" ,flags)))))))
(define-public rmath-standalone
(package (inherit r-minimal)
(name "rmath-standalone")
(arguments
'(#:phases
(modify-phases %standard-phases
(add-after 'configure 'chdir
(lambda _ (chdir "src/nmath/standalone/") #t)))))
(synopsis "Standalone R math library")
(description
"This package provides the R math library as an independent package.")))
(define-public r-boot
(package
(name "r-boot")
(version "1.3-25")
(source
(origin
(method url-fetch)
(uri (cran-uri "boot" version))
(sha256
(base32
"1gpvi1h3nqhnnsfy96rlhakdpj84iqqsxr29rr3261sknky3aj26"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/boot")
(synopsis "Bootstrap functions for R")
(description
"This package provides functions and datasets for bootstrapping from the
book \"Bootstrap Methods and Their Application\" by A.C. Davison and
D.V. Hinkley (1997, CUP), originally written by Angelo Canty for S.")
;; Unlimited distribution
(license (license:non-copyleft "file://R/bootfuns.q"))))
(define-public r-mass
(package
(name "r-mass")
(version "7.3-51.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "MASS" version))
(sha256
(base32
"1viyxy22qp8abzzzlbck55b0i81rrdygim1dq2pm52s2v13mq0z2"))))
(properties `((upstream-name . "MASS")))
(build-system r-build-system)
(home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
(synopsis "Support functions and datasets for Venables and Ripley's MASS")
(description
"This package provides functions and datasets for the book \"Modern
Applied Statistics with S\" (4th edition, 2002) by Venables and Ripley.")
;; Either version may be picked.
(license (list license:gpl2 license:gpl3))))
(define-public r-class
(package
(name "r-class")
(version "7.3-17")
(source
(origin
(method url-fetch)
(uri (cran-uri "class" version))
(sha256
(base32
"04qk8qia0qr8893fizmkbd5hsqn6m8383c0cyn9xnmkmvyv8a7xy"))))
(build-system r-build-system)
(propagated-inputs
`(("r-mass" ,r-mass)))
(home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
(synopsis "R functions for classification")
(description
"This package provides various functions for classification, including
k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.")
;; Either of the two versions can be picked.
(license (list license:gpl2 license:gpl3))))
(define-public r-cluster
(package
(name "r-cluster")
(version "2.1.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "cluster" version))
(sha256
(base32
"055af3yz2biqbsbwm4arwr1yqnj4gicpzv2i6dbfl5pnz2z5byga"))))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
(home-page "https://cran.r-project.org/web/packages/cluster")
(synopsis "Methods for cluster analysis")
(description
"This package provides methods for cluster analysis. It is a much
extended version of the original from Peter Rousseeuw, Anja Struyf and Mia
Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
(license license:gpl2+)))
(define-public r-codetools
(package
(name "r-codetools")
(version "0.2-16")
(source
(origin
(method url-fetch)
(uri (cran-uri "codetools" version))
(sha256
(base32
"00bmhzqprqfn3w6ghx7sakai6s7il8gbksfiawj8in5mbhbncypn"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/codetools")
(synopsis "Code analysis tools for R")
(description "This package provides code analysis tools for R to check R
code for possible problems.")
;; Any version of the GPL.
(license (list license:gpl2+ license:gpl3+))))
(define-public r-foreign
(package
(name "r-foreign")
(version "0.8-80")
(source
(origin
(method url-fetch)
(uri (cran-uri "foreign" version))
(sha256
(base32
"0wjdi3qn9famsxmpdyyahidaid0yhxlpx4ad9k8vrxhxd6xspasp"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/foreign")
(synopsis "Read data stored by other statistics software")
(description
"This package provides functions for reading and writing data stored by
some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and
for reading and writing some dBase files.")
(license license:gpl2+)))
(define-public r-kernsmooth
(package
(name "r-kernsmooth")
(version "2.23-17")
(source
(origin
(method url-fetch)
(uri (cran-uri "KernSmooth" version))
(sha256
(base32
"11g6b0q67vasxag6v9m4px33qqxpmnx47c73yv1dninv2pz76g9b"))))
(properties `((upstream-name . "KernSmooth")))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
(home-page "https://cran.r-project.org/web/packages/KernSmooth")
(synopsis "Functions for kernel smoothing")
(description
"This package provides functions for kernel smoothing (and density
estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995)
\"Kernel Smoothing\".")
;; Unlimited use and distribution
(license (license:non-copyleft "file://LICENCE.note"))))
(define-public r-lattice
(package
(name "r-lattice")
(version "0.20-41")
(source (origin
(method url-fetch)
(uri (cran-uri "lattice" version))
(sha256
(base32
"1dapkmh4jlb9sxfrpvapvlfhczl4s8p3r20bn47gcgdk1izmbjjl"))))
(build-system r-build-system)
(home-page "http://lattice.r-forge.r-project.org/")
(synopsis "High-level data visualization system")
(description
"The lattice package provides a powerful and elegant high-level data
visualization system inspired by Trellis graphics, with an emphasis on
multivariate data. Lattice is sufficient for typical graphics needs, and is
also flexible enough to handle most nonstandard requirements.")
(license license:gpl2+)))
(define-public r-matrix
(package
(name "r-matrix")
(version "1.2-18")
(source
(origin
(method url-fetch)
(uri (cran-uri "Matrix" version))
(sha256
(base32
"06b1rc1vq65b271f2wpzhqkvhng8hwwnvjflzxkng50i52603zzp"))))
(properties `((upstream-name . "Matrix")))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
(home-page "http://Matrix.R-forge.R-project.org/")
(synopsis "Sparse and dense matrix classes and methods")
(description
"This package provides classes and methods for dense and sparse matrices
and operations on them using LAPACK and SuiteSparse.")
(license license:gpl2+)))
(define-public r-nlme
(package
(name "r-nlme")
(version "3.1-148")
(source
(origin
(method url-fetch)
(uri (cran-uri "nlme" version))
(sha256
(base32 "1cmf43r82kar1hpj9dhqfi3rbjka0z5s6cbdy7fklwh99xj3phkp"))))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
(native-inputs
`(("gfortran" ,gfortran)))
(home-page "https://cran.r-project.org/web/packages/nlme")
(synopsis "Linear and nonlinear mixed effects models")
(description
"This package provides tools to fit and compare Gaussian linear and
nonlinear mixed-effects models.")
(license license:gpl2+)))
(define-public r-mgcv
(package
(name "r-mgcv")
(version "1.8-31")
(source
(origin
(method url-fetch)
(uri (cran-uri "mgcv" version))
(sha256
(base32 "1if34mqsn9r7g0l82lxvvx0wjhi9paqdymyd73nschxcl1if8vbk"))))
(build-system r-build-system)
(propagated-inputs
`(("r-matrix" ,r-matrix)
("r-nlme" ,r-nlme)))
(home-page "https://cran.r-project.org/web/packages/mgcv")
(synopsis "Mixed generalised additive model computation")
(description
"GAMs, GAMMs and other generalized ridge regression with multiple smoothing
parameter estimation by GCV, REML or UBRE/AIC. The library includes a
@code{gam()} function, a wide variety of smoothers, JAGS support and
distributions beyond the exponential family.")
(license license:gpl2+)))
(define-public r-nnet
(package
(name "r-nnet")
(version "7.3-14")
(source
(origin
(method url-fetch)
(uri (cran-uri "nnet" version))
(sha256
(base32
"1bzl62p5awva5kxcncs6lrdrkqp9ljd993zia731ckfpcjbrw6sx"))))
(build-system r-build-system)
(home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
(synopsis "Feed-forward neural networks and multinomial log-linear models")
(description
"This package provides functions for feed-forward neural networks with a
single hidden layer, and for multinomial log-linear models.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-rpart
(package
(name "r-rpart")
(version "4.1-15")
(source
(origin
(method url-fetch)
(uri (cran-uri "rpart" version))
(sha256
(base32
"0p5frya963ppn476p5dxs2mnarsalksr6gw9zzmjsn8ikq7bx3ib"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/rpart")
(synopsis "Recursive partitioning and regression trees")
(description
"This package provides recursive partitioning functions for
classification, regression and survival trees.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-spatial
(package
(name "r-spatial")
(version "7.3-12")
(source
(origin
(method url-fetch)
(uri (cran-uri "spatial" version))
(sha256
(base32
"0qrdhzd5r78iwi46nk8jr56dzz5l5imkflxjw64d0ys0wyg06fbn"))))
(build-system r-build-system)
(home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
(synopsis "Functions for kriging and point pattern analysis")
(description
"This package provides functions for kriging and point pattern
analysis.")
;; Either version may be picked.
(license (list license:gpl2 license:gpl3))))
(define-public r-survival
(package
(name "r-survival")
(version "3.2-3")
(source
(origin
(method url-fetch)
(uri (cran-uri "survival" version))
(sha256
(base32
"07h76r2y23w889257krlijcw4n4d7ssx92x7i5qb1xyv5gyvl3rx"))))
(build-system r-build-system)
(propagated-inputs
`(("r-matrix" ,r-matrix)))
(home-page "https://github.com/therneau/survival")
(synopsis "Survival analysis")
(description
"This package contains the core survival analysis routines, including
definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
curves, Cox models, and parametric accelerated failure time models.")
(license license:lgpl2.0+)))
(define-public r
(package (inherit r-minimal)
(name "r")
(source #f)
(build-system trivial-build-system)
(arguments '(#:builder (begin (mkdir %output) #t)))
(propagated-inputs
`(("r-minimal" ,r-minimal)
("r-boot" ,r-boot)
("r-class" ,r-class)
("r-cluster" ,r-cluster)
("r-codetools" ,r-codetools)
("r-foreign" ,r-foreign)
("r-kernsmooth" ,r-kernsmooth)
("r-lattice" ,r-lattice)
("r-mass" ,r-mass)
("r-matrix" ,r-matrix)
("r-mgcv" ,r-mgcv)
("r-nlme" ,r-nlme)
("r-nnet" ,r-nnet)
("r-rpart" ,r-rpart)
("r-spatial" ,r-spatial)
("r-survival" ,r-survival)))))
(define-public r-bit
(package
(name "r-bit")
(version "1.1-15.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "bit" version))
(sha256
(base32
"12xjkkkmflkz8s435by4r23b57cz7z67z84907f6qg99hn1yg0qb"))))
(build-system r-build-system)
(home-page "http://ff.r-forge.r-project.org")
(synopsis "Class for vectors of 1-bit booleans")
(description
"This package provides bitmapped vectors of booleans (no @code{NA}s),
coercion from and to logicals, integers and integer subscripts, fast boolean
operators and fast summary statistics. With @code{bit} class vectors of true
binary booleans, @code{TRUE} and @code{FALSE} can be stored with 1 bit only.")
(license license:gpl2)))
(define-public r-bit64
(package
(name "r-bit64")
(version "0.9-7")
(source
(origin
(method url-fetch)
(uri (cran-uri "bit64" version))
(sha256
(base32
"07znvz9vp1nz1y5ljng4qyskvm943cdbmy996s67560ijxzsm6kv"))))
(build-system r-build-system)
(propagated-inputs
`(("r-bit" ,r-bit)))
(home-page "http://ff.r-forge.r-project.org/")
(synopsis "S3 class for vectors of 64 bit integers")
(description
"The bit64 package provides serializable S3 atomic 64 bit (signed)
integers that can be used in vectors, matrices, arrays and @code{data.frames}.
Methods are available for coercion from and to logicals, integers, doubles,
characters and factors as well as many elementwise and summary functions.
Many fast algorithmic operations such as @code{match} and @code{order} support
interactive data exploration and manipulation and optionally leverage
caching.")
(license license:gpl2)))
(define-public r-dichromat
(package
(name "r-dichromat")
(version "2.0-0")
(source
(origin
(method url-fetch)
(uri (cran-uri "dichromat" version))
(sha256
(base32 "1l8db1nk29ccqg3mkbafvfiw0775iq4gapysf88xq2zp6spiw59i"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/dichromat")
(synopsis "Color schemes for dichromats")
(description
"Dichromat collapses red-green or green-blue distinctions to simulate the
effects of different types of color-blindness.")
(license license:gpl2+)))
(define-public r-digest
(package
(name "r-digest")
(version "0.6.25")
(source
(origin
(method url-fetch)
(uri (cran-uri "digest" version))
(sha256
(base32 "1r9dkq0kxkps54gkmgcdngsd068p054va2vhnqhs5jmwp2vsvk0m"))))
(build-system r-build-system)
;; Vignettes require r-knitr, which requires r-digest, so we have to
;; disable them and the tests.
(arguments
`(#:tests? #f
#:configure-flags (list "--no-build-vignettes")))
(home-page "http://dirk.eddelbuettel.com/code/digest.html")
(synopsis "Create cryptographic hash digests of R objects")
(description
"This package contains an implementation of a function @code{digest()} for
the creation of hash digests of arbitrary R objects (using the md5, sha-1,
sha-256, crc32, xxhash and murmurhash algorithms) permitting easy comparison
of R language objects, as well as a function @code{hmac()} to create hash-based
message authentication code.
Please note that this package is not meant to be deployed for cryptographic
purposes for which more comprehensive (and widely tested) libraries such as
OpenSSL should be used.")
(license license:gpl2+)))
(define-public r-estimability
(package
(name "r-estimability")
(version "1.3")
(source (origin
(method url-fetch)
(uri (cran-uri "estimability" version))
(sha256
(base32
"0cifdaa71spkcxl4db4z884jrya865sg3dhcv4isd8fnzg2pjcd3"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/estimability")
(synopsis "Tools for assessing estimability of linear predictions")
(description "Provides tools for determining estimability of linear
functions of regression coefficients, and @code{epredict} methods that handle
non-estimable cases correctly.")
(license license:gpl2+)))
(define-public r-labeling
(package
(name "r-labeling")
(version "0.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "labeling" version))
(sha256
(base32 "13sk7zrrrzry6ky1bp8mmnzcl9jhvkig8j4id9nny7z993mnk00d"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/labeling")
(synopsis "Axis labeling algorithms")
(description "The labeling package provides a range of axis labeling
algorithms.")
(license license:expat)))
(define-public r-magrittr
(package
(name "r-magrittr")
(version "1.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "magrittr" version))
(sha256
(base32 "1s1ar6rag8m277qcqmdp02gn4awn9bdj9ax0r8s32i59mm1mki05"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/magrittr/index.html")
(synopsis "A forward-pipe operator for R")
(description
"Magrittr provides a mechanism for chaining commands with a new
forward-pipe operator, %>%. This operator will forward a value, or the result
of an expression, into the next function call/expression. There is flexible
support for the type of right-hand side expressions. For more information,
see package vignette. To quote Rene Magritte, \"Ceci n'est pas un pipe.\"")
(license license:expat)))
(define-public r-munsell
(package
(name "r-munsell")
(version "0.5.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "munsell" version))
(sha256
(base32 "16g1fzisbpqb15yh3pqf3iia4csppva5dnv1z88x9dg263xskwyh"))))
(build-system r-build-system)
(propagated-inputs
`(("r-colorspace" ,r-colorspace)))
(home-page "https://cran.r-project.org/web/packages/munsell")
(synopsis "Munsell colour system")
(description
"The Munsell package contains Functions for exploring and using the
Munsell colour system.")
(license license:expat)))
(define-public r-permute
(package
(name "r-permute")
(version "0.9-5")
(source
(origin
(method url-fetch)
(uri (cran-uri "permute" version))
(sha256
(base32
"0ra8p5mf2590azrkas8z2ry7mif77xqxd29n4zgyi5vll225726j"))))
(build-system r-build-system)
;; Tests do not run correctly, but running them properly would entail a
;; circular dependency with vegan.
(home-page "https://github.com/gavinsimpson/permute")
(synopsis "Functions for Generating Restricted Permutations of Data")
(description
"This package provides a set of restricted permutation designs for freely
exchangeable, line transects (time series), spatial grid designs and permutation
of blocks (groups of samples). @code{permute} also allows split-plot designs,
in which the whole-plots or split-plots or both can be freely exchangeable.")
(license license:gpl2+)))
(define-public r-plyr
(package
(name "r-plyr")
(version "1.8.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "plyr" version))
(sha256
(base32 "11sjjdn146w95s1vsfmmgdls082cbnm1slv98xvyjhsl2mpx4mga"))))
(build-system r-build-system)
(propagated-inputs `(("r-rcpp" ,r-rcpp)))
(home-page "http://had.co.nz/plyr")
(synopsis "Tools for Splitting, Applying and Combining Data")
(description
"Plyr is a set of tools that solves a common set of problems: you need to
break a big problem down into manageable pieces, operate on each piece and
then put all the pieces back together. For example, you might want to fit a
model to each spatial location or time point in your study, summarise data by
panels or collapse high-dimensional arrays to simpler summary statistics.")
(license license:expat)))
(define-public r-proto
(package
(name "r-proto")
(version "1.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "proto" version))
(sha256
(base32 "1l843p8vckjckdhgv37ngv47fga5jzy0n00pmipvp05nnaixk54j"))))
(build-system r-build-system)
(home-page "https://github.com/hadley/proto")
(synopsis "Prototype object-based programming")
(description
"Proto is an object oriented system using object-based, also called
prototype-based, rather than class-based object oriented ideas.")
(license license:gpl2+)))
(define-public r-rcolorbrewer
(package
(name "r-rcolorbrewer")
(version "1.1-2")
(source
(origin
(method url-fetch)
(uri (cran-uri "RColorBrewer" version))
(sha256
(base32 "1pfcl8z1pnsssfaaz9dvdckyfnnc6rcq56dhislbf571hhg7isgk"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/RColorBrewer")
(synopsis "ColorBrewer palettes")
(description
"This package provides color schemes for maps (and other graphics)
designed by Cynthia Brewer as described at http://colorbrewer2.org")
;; Includes code licensed under bsd-4
(license license:asl2.0)))
(define-public r-sendmailr
(package
(name "r-sendmailr")
(version "1.2-1")
(source
(origin
(method url-fetch)
(uri (cran-uri "sendmailR" version))
(sha256
(base32
"0z7ipywnzgkhfvl4zb2fjwl1xq7b5wib296vn9c9qgbndj6b1zh4"))))
(properties `((upstream-name . "sendmailR")))
(build-system r-build-system)
(propagated-inputs
`(("r-base64enc" ,r-base64enc)))
(home-page
"https://cran.r-project.org/web/packages/sendmailR")
(synopsis "Send email using R")
(description
"This package contains a simple SMTP client which provides a portable
solution for sending email, including attachments, from within R.")
(license license:gpl2+)))
(define-public r-stringi
(package
(name "r-stringi")
(version "1.4.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "stringi" version))
(sha256
(base32
"1mkgxzf000zdgbbbvg2vf4md4l501n5lfksffq8vdg6pbgd6fgv3"))))
(build-system r-build-system)
(inputs `(("icu4c" ,icu4c)))
(native-inputs `(("pkg-config" ,pkg-config)))
(home-page "http://stringi.rexamine.com/")
(synopsis "Character string processing facilities")
(description
"This package allows for fast, correct, consistent, portable, as well as
convenient character string/text processing in every locale and any native
encoding. Owing to the use of the ICU library, the package provides R users
with platform-independent functions known to Java, Perl, Python, PHP, and Ruby
programmers. Among available features there are: pattern searching
(e.g. via regular expressions), random string generation, string collation,
transliteration, concatenation, date-time formatting and parsing, etc.")
(license license:bsd-3)))
(define-public r-stringr
(package
(name "r-stringr")
(version "1.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "stringr" version))
(sha256
(base32 "1p9ip7p87gbbg4s6d3d392svvzz2b5dqdq2c8ilgvn4s78nlsq47"))))
(build-system r-build-system)
(propagated-inputs
`(("r-glue" ,r-glue)
("r-magrittr" ,r-magrittr)
("r-stringi" ,r-stringi)))
(home-page "https://github.com/hadley/stringr")
(synopsis "Simple, consistent wrappers for common string operations")
(description
"Stringr is a consistent, simple and easy to use set of wrappers around
the fantastic @code{stringi} package. All function and argument names (and
positions) are consistent, all functions deal with \"NA\"'s and zero length
vectors in the same way, and the output from one function is easy to feed into
the input of another.")
(license license:gpl2+)))
(define-public r-reshape2
(package
(name "r-reshape2")
(version "1.4.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "reshape2" version))
(sha256
(base32 "1n0jrajpvc8hjkh9z4g8bwq63qy5vy5cgl2pzjardyih4ngcz3fq"))))
(build-system r-build-system)
(propagated-inputs
`(("r-plyr" ,r-plyr)
("r-rcpp" ,r-rcpp)
("r-stringr" ,r-stringr)))
(home-page "https://github.com/hadley/reshape")
(synopsis "Flexibly reshape data: a reboot of the \"reshape\" package")
(description
"Reshape2 is an R library to flexibly restructure and aggregate data
using just two functions: melt and dcast (or acast).")
(license license:expat)))
(define-public r-ggplot2
(package
(name "r-ggplot2")
(version "3.3.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "ggplot2" version))
(sha256
(base32 "0wsib5qpzn4d0w1ss3x158xmrawkms8vvsfvr3mh40pvd8g2ibad"))))
(build-system r-build-system)
(propagated-inputs
`(("r-digest" ,r-digest)
("r-glue" ,r-glue)
("r-gtable" ,r-gtable)
("r-isoband" ,r-isoband)
("r-mass" ,r-mass)
("r-mgcv" ,r-mgcv)
("r-tibble" ,r-tibble)
("r-rlang" ,r-rlang)
("r-scales" ,r-scales)
("r-svglite" ,r-svglite) ; Needed for 'ggsave'
("r-withr" ,r-withr)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://ggplot2.tidyverse.org")
(synopsis "An implementation of the grammar of graphics")
(description
"Ggplot2 is an implementation of the grammar of graphics in R. It
combines the advantages of both base and lattice graphics: conditioning and
shared axes are handled automatically, and you can still build up a plot step
by step from multiple data sources. It also implements a sophisticated
multidimensional conditioning system and a consistent interface to map data to
aesthetic attributes.")
(license license:gpl2+)))
(define-public r-ggdendro
(package
(name "r-ggdendro")
(version "0.1-20")
(source (origin
(method url-fetch)
(uri (cran-uri "ggdendro" version))
(sha256
(base32
"1zzq1hxd0d1qa5hrzwfkdw6fzscpcafbwbpkrb62dm559y8awp0j"))))
(build-system r-build-system)
(propagated-inputs
`(("r-ggplot2" ,r-ggplot2)
("r-mass" ,r-mass)
("r-knitr" ,r-knitr)))
(home-page "https://github.com/andrie/ggdendro")
(synopsis "Create Dendrograms and Tree Diagrams Using ggplot2")
(description "This is a set of tools for dendrograms and tree plots using
ggplot2. The ggplot2 philosophy is to clearly separate data from the
presentation. Unfortunately the plot method for dendrograms plots directly
to a plot device with out exposing the data. The ggdendro package resolves
this by making available functions that extract the dendrogram plot data.
The package provides implementations for tree, rpart, as well as diana and
agnes cluster diagrams.")
(license license:gpl2+)))
(define-public r-gdtools
(package
(name "r-gdtools")
(version "0.2.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "gdtools" version))
(sha256
(base32
"08njzin0c6biw62j5w30r9j85vr1m2cg4hmv5d76nym860yrlqjf"))))
(build-system r-build-system)
(native-inputs
`(("pkg-config" ,pkg-config)))
(inputs
`(("cairo" ,cairo)
("freetype2" ,freetype)
("zlib" ,zlib)))
(propagated-inputs
`(("r-rcpp" ,r-rcpp)
("r-systemfonts" ,r-systemfonts)))
(home-page "https://cran.r-project.org/web/packages/gdtools")
(synopsis "Utilities for graphical rendering")
(description
"The @code{gdtools} package provides functionalities to get font metrics
and to generate base64 encoded string from raster matrix.")
(license license:gpl3)))
(define-public r-svglite
(package
(name "r-svglite")
(version "1.2.3.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "svglite" version))
(sha256
(base32
"00n8bg4iligl0h24v42cka417w26zmcxrr4r6k8wdal1riwhgmi5"))))
(build-system r-build-system)
(propagated-inputs
`(("r-bh" ,r-bh)
("r-gdtools" ,r-gdtools)
("r-rcpp" ,r-rcpp)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/hadley/svglite")
(synopsis "SVG graphics device")
(description
"@code{svglite} is a graphics device that produces clean
@dfn{SVG} (Scalable Vector Graphics) output, suitable for use on the web, or
hand editing. Compared to the built-in @code{svg()}, @code{svglite} is
considerably faster, produces smaller files, and leaves text as is.")
(license license:gpl2+)))
(define-public r-assertthat
(package
(name "r-assertthat")
(version "0.2.1")
(source (origin
(method url-fetch)
(uri (cran-uri "assertthat" version))
(sha256
(base32
"17wy5bdfzg73sg2clisg1k3zyn1adkj59x56m5nwia2k8z67zkw5"))))
(build-system r-build-system)
(home-page "https://github.com/hadley/assertthat")
(synopsis "Easy pre and post assertions")
(description
"Assertthat is an extension to stopifnot() that makes it easy to declare
the pre and post conditions that your code should satisfy, while also
producing friendly error messages so that your users know what they've done
wrong.")
(license license:gpl3+)))
(define-public r-lazyeval
(package
(name "r-lazyeval")
(version "0.2.2")
(source (origin
(method url-fetch)
(uri (cran-uri "lazyeval" version))
(sha256
(base32
"1m10i059csrcqkcn59a8wspn784alxsq3symzhn24mhhl894346n"))))
(build-system r-build-system)
(home-page "https://github.com/hadley/lazyeval")
(synopsis "Lazy (non-standard) evaluation in R")
(description
"This package provides the tools necessary to do non-standard
evaluation (NSE) in R.")
(license license:gpl3+)))
(define-public r-dbi
(package
(name "r-dbi")
(version "1.1.0")
(source (origin
(method url-fetch)
(uri (cran-uri "DBI" version))
(sha256
(base32
"1r03j9rdcxb9bhxk40dkmy10ikz4yzsxhy3f9k9ix3x577xbfvd9"))))
(build-system r-build-system)
(home-page "https://github.com/rstats-db/DBI")
(synopsis "R database interface")
(description
"The DBI package provides a database interface (DBI) definition for
communication between R and relational database management systems. All
classes in this package are virtual and need to be extended by the various
R/DBMS implementations.")
(license license:lgpl2.0+)))
(define-public r-bh
(package
(name "r-bh")
(version "1.72.0-3")
(source (origin
(method url-fetch)
(uri (cran-uri "BH" version))
(sha256
(base32
"1ay8vb6i730lipg8b8g3893vqglhw2kqpc29lwdrxdkb66iw33l8"))))
(build-system r-build-system)
(home-page "https://github.com/eddelbuettel/bh")
(synopsis "R package providing subset of Boost headers")
(description
"This package aims to provide the most useful subset of Boost libraries
for template use among CRAN packages.")
(license license:boost1.0)))
(define-public r-evaluate
(package
(name "r-evaluate")
(version "0.14")
(source (origin
(method url-fetch)
(uri (cran-uri "evaluate" version))
(sha256
(base32
"0a2y7j534gbgixkwj9r1z76l2vssw4g1hznzbpclc076wkdqpj58"))))
(build-system r-build-system)
(home-page "https://github.com/hadley/evaluate")
(synopsis "Parsing and evaluation tools for R")
(description
"This package provides tools that allow you to recreate the parsing,
evaluation and display of R code, with enough information that you can
accurately recreate what happens at the command line. The tools can easily be
adapted for other output formats, such as HTML or LaTeX.")
(license license:gpl3+)))
(define-public r-formatr
(package
(name "r-formatr")
(version "1.7")
(source (origin
(method url-fetch)
(uri (cran-uri "formatR" version))
(sha256
(base32
"1nsxbrx31k3y6yql30qkrvdfyznlia2qfvwv95mfiy7m7wdn4rm3"))))
(build-system r-build-system)
(home-page "https://yihui.org/formatr/")
(synopsis "Format R code automatically")
(description
"This package provides a function to format R source code. Spaces and
indent will be added to the code automatically, and comments will be preserved
under certain conditions, so that R code will be more human-readable and tidy.
There is also a Shiny app as a user interface in this package.")
(license license:gpl3+)))
(define-public r-highr
(package
(name "r-highr")
(version "0.8")
(source (origin
(method url-fetch)
(uri (cran-uri "highr" version))
(sha256
(base32
"0my6idnhmmgs4q1vs40y2lh56yij2p59mpwvm53wjs2zk6x1zl2b"))))
(build-system r-build-system)
(home-page "https://github.com/yihui/highr")
(synopsis "Syntax highlighting for R source code")
(description
"This package provides syntax highlighting for R source code. Currently
it supports LaTeX and HTML output. Source code of other languages is
supported via Andre Simon's highlight package.")
(license license:gpl3+)))
(define-public r-mime
(package
(name "r-mime")
(version "0.9")
(source (origin
(method url-fetch)
(uri (cran-uri "mime" version))
(sha256
(base32
"107sqarmyhxlch5nrg796i5z03p9mshskisiq2fm628ajk99gkrc"))))
(build-system r-build-system)
(home-page "https://github.com/yihui/mime")
(synopsis "R package to map filenames to MIME types")
(description
"This package guesses the MIME type from a filename extension using the
data derived from /etc/mime.types in UNIX-type systems.")
(license license:gpl2)))
(define-public r-markdown
(package
(name "r-markdown")
(version "1.1")
(source (origin
(method url-fetch)
(uri (cran-uri "markdown" version))
(sha256
(base32
"06zwbrp14bri3470anadd7dvgmw06xf8df6v2pk64wx3f9sd934d"))))
(build-system r-build-system)
;; Skip check phase because the tests require the r-knitr package to be
;; installed. This prevents installation failures. Knitr normally
;; shouldn't be available since r-markdown is a dependency of the r-knitr
;; package.
(arguments `(#:tests? #f))
(propagated-inputs
`(("r-mime" ,r-mime)
("r-xfun" ,r-xfun)))
(home-page "https://github.com/rstudio/markdown")
(synopsis "Markdown rendering for R")
(description
"This package provides R bindings to the Sundown Markdown rendering
library (https://github.com/vmg/sundown). Markdown is a plain-text formatting
syntax that can be converted to XHTML or other formats.")
(license license:gpl2)))
(define-public r-yaml
(package
(name "r-yaml")
(version "2.2.1")
(source (origin
(method url-fetch)
(uri (cran-uri "yaml" version))
(sha256
(base32
"10r7g26x73am45niigm3k466030nymnr3v3fjljafzrr5aybf58i"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/yaml/")
(synopsis "Methods to convert R data to YAML and back")
(description
"This package implements the libyaml YAML 1.1 parser and
emitter (http://pyyaml.org/wiki/LibYAML) for R.")
(license license:bsd-3)))
(define-public r-knitr
(package
(name "r-knitr")
(version "1.29")
(source (origin
(method url-fetch)
(uri (cran-uri "knitr" version))
(sha256
(base32
"00rcwiq8znmk5h4qgrwd0639xyb38iwbjykqjk3disz3kvrcvbn1"))))
(build-system r-build-system)
(propagated-inputs
`(("r-evaluate" ,r-evaluate)
("r-highr" ,r-highr)
("r-markdown" ,r-markdown)
("r-stringr" ,r-stringr)
("r-xfun" ,r-xfun)
("r-yaml" ,r-yaml)))
(home-page "https://yihui.org/knitr/")
(synopsis "General-purpose package for dynamic report generation in R")
(description
"This package provides a general-purpose tool for dynamic report
generation in R using Literate Programming techniques.")
;; The code is released under any version of the GPL. As it is used by
;; r-markdown which is available under GPLv2 only, we have chosen GPLv2+
;; here.
(license license:gpl2+)))
(define-public r-knitrbootstrap
(package
(name "r-knitrbootstrap")
(version "1.0.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "knitrBootstrap" version))
(sha256
(base32
"1aj60j7f0gcs120fdrnfbnb7vk7lfn1phil0mghg6a5zldz4cqs3"))))
(properties `((upstream-name . "knitrBootstrap")))
(build-system r-build-system)
(propagated-inputs
`(("r-knitr" ,r-knitr)
("r-rmarkdown" ,r-rmarkdown)
("r-markdown" ,r-markdown)))
(home-page "https://github.com/jimhester/knitrBootstrap")
(synopsis "Knitr bootstrap framework")
(description
"This package provides a framework to create Bootstrap 3 HTML reports
from knitr Rmarkdown.")
(license license:expat)))
(define-public r-microbenchmark
(package
(name "r-microbenchmark")
(version "1.4-7")
(source (origin
(method url-fetch)
(uri (cran-uri "microbenchmark" version))
(sha256
(base32
"1xl4m4yl4h2zcjiz8wsa7f3sh55qg2xr3sgpvz18rlix6b3173r6"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/microbenchmark/")
(synopsis "Accurate timing functions for R")
(description
"This package provides infrastructure to accurately measure and compare
the execution time of R expressions.")
(license license:bsd-2)))
(define-public r-pryr
(package
(name "r-pryr")
(version "0.1.4")
(source (origin
(method url-fetch)
(uri (cran-uri "pryr" version))
(sha256
(base32
"06vj5xl9x37kbd3l5bw7sbgfdnp37spvrjrn976rxi04clqk966k"))))
(build-system r-build-system)
(propagated-inputs
`(("r-stringr" ,r-stringr)
("r-codetools" ,r-codetools)))
(native-inputs
`(("r-rcpp" ,r-rcpp)))
(home-page "https://github.com/hadley/pryr")
(synopsis "Tools for computing on the R language")
(description
"This package provides useful tools to pry back the covers of R and
understand the language at a deeper level.")
(license license:gpl2)))
(define-public r-memoise
(package
(name "r-memoise")
(version "1.1.0")
(source (origin
(method url-fetch)
(uri (cran-uri "memoise" version))
(sha256
(base32
"034qfc2xlh30x1q2vya239w34a3ir3y2fwnx2agbgbi6592zjxmj"))))
(build-system r-build-system)
(propagated-inputs
`(("r-digest" ,r-digest)))
(home-page "https://github.com/hadley/memoise")
(synopsis "Memoise functions for R")
(description
"This R package caches the results of a function so that when
you call it again with the same arguments it returns the pre-computed value.")
(license license:expat)))
(define-public r-crayon
(package
(name "r-crayon")
(version "1.3.4")
(source (origin
(method url-fetch)
(uri (cran-uri "crayon" version))
(sha256
(base32
"0s7s6vc3ww8pzanpjisym4jjvwcc5pi2qg8srx7jqlz9j3wrnvpw"))))
(build-system r-build-system)
(propagated-inputs
`(("r-memoise" ,r-memoise)))
(home-page "https://github.com/gaborcsardi/crayon")
(synopsis "Colored terminal output for R")
(description
"Colored terminal output on terminals that support ANSI color and
highlight codes. It also works in Emacs ESS. ANSI color support is
automatically detected. Colors and highlighting can be combined and nested.
New styles can also be created easily. This package was inspired by the
\"chalk\" JavaScript project.")
(license license:expat)))
(define-public r-praise
(package
(name "r-praise")
(version "1.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "praise" version))
(sha256
(base32
"1gfyypnvmih97p2r0php9qa39grzqpsdbq5g0fdsbpq5zms5w0sw"))))
(build-system r-build-system)
(home-page "https://github.com/gaborcsardi/praise")
(synopsis "Functions to praise users")
(description
"This package provides template functions to assist in building friendly
R packages that praise their users.")
(license license:expat)))
(define-public r-testthat
(package
(name "r-testthat")
(version "2.3.2")
(source (origin
(method url-fetch)
(uri (cran-uri "testthat" version))
(sha256
(base32
"0v70v2fs0f2ir962z9csbjlj8snrq9mbjfyhhb9dhz3zy26qs9hs"))))
(build-system r-build-system)
(propagated-inputs
`(("r-cli" ,r-cli)
("r-crayon" ,r-crayon)
("r-digest" ,r-digest)
("r-ellipsis" ,r-ellipsis)
("r-evaluate" ,r-evaluate)
("r-magrittr" ,r-magrittr)
("r-pkgload" ,r-pkgload)
("r-praise" ,r-praise)
("r-r6" ,r-r6)
("r-rlang" ,r-rlang)
("r-withr" ,r-withr)))
(home-page "https://github.com/hadley/testthat")
(synopsis "Unit testing for R")
(description
"This package provides a unit testing system for R designed to be fun,
flexible and easy to set up.")
(license license:expat)))
(define-public r-r6
(package
(name "r-r6")
(version "2.4.1")
(source (origin
(method url-fetch)
(uri (cran-uri "R6" version))
(sha256
(base32
"0gma5z41mx02ka9h96xdyf3p6i1rx0izczrzj26c4mbnh9jgvc16"))))
(build-system r-build-system)
(home-page "https://github.com/wch/R6/")
(synopsis "Classes with reference semantics in R")
(description
"The R6 package allows the creation of classes with reference semantics,
similar to R's built-in reference classes. Compared to reference classes, R6
classes are simpler and lighter-weight, and they are not built on S4 classes
so they do not require the methods package. These classes allow public and
private members, and they support inheritance, even when the classes are
defined in different packages.")
(license license:expat)))
(define-public r-rlang
(package
(name "r-rlang")
(version "0.4.7")
(source (origin
(method url-fetch)
(uri (cran-uri "rlang" version))
(sha256
(base32
"0f4rhnhyhgrv874l0yzm80ij6vcqdykfd7bzmnqs0wbgyhkxk8vq"))))
(build-system r-build-system)
(home-page "http://rlang.tidyverse.org")
(synopsis "Functions for base types, core R and Tidyverse features")
(description "This package provides a toolbox for working with base types,
core R features like the condition system, and core @code{Tidyverse} features
like tidy evaluation.")
(license license:gpl3)))
(define-public r-tibble
(package
(name "r-tibble")
(version "3.0.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "tibble" version))
(sha256
(base32
"0f4yi87w6509lnaz1lhk9s8nm3bzx21ij3273s0zx7vpbp0qlxxz"))))
(build-system r-build-system)
(propagated-inputs
`(("r-cli" ,r-cli)
("r-crayon" ,r-crayon)
("r-ellipsis" ,r-ellipsis)
("r-fansi" ,r-fansi)
("r-lifecycle" ,r-lifecycle)
("r-magrittr" ,r-magrittr)
("r-pkgconfig" ,r-pkgconfig)
("r-pillar" ,r-pillar)
("r-rlang" ,r-rlang)
("r-vctrs" ,r-vctrs)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/hadley/tibble")
(synopsis "Simple data frames")
(description
"This package provides a @code{tbl_df} class that offers better checking
and printing capabilities than traditional data frames.")
(license license:expat)))
(define-public r-dplyr
(package
(name "r-dplyr")
(version "1.0.0")
(source (origin
(method url-fetch)
(uri (cran-uri "dplyr" version))
(sha256
(base32
"1wxi7pzw1mqkgay2s9hwlkpkxfzydngf56wrf7k93n14rlqm3dmz"))))
(build-system r-build-system)
(propagated-inputs
`(("r-ellipsis" ,r-ellipsis)
("r-generics" ,r-generics)
("r-glue" ,r-glue)
("r-lifecycle" ,r-lifecycle)
("r-magrittr" ,r-magrittr)
("r-r6" ,r-r6)
("r-rlang" ,r-rlang)
("r-tibble" ,r-tibble)
("r-tidyselect" ,r-tidyselect)
("r-vctrs" ,r-vctrs)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/hadley/dplyr")
(synopsis "Tools for working with data frames in R")
(description
"dplyr is the next iteration of plyr. It is focussed on tools for
working with data frames. It has three main goals: 1) identify the most
important data manipulation tools needed for data analysis and make them easy
to use in R; 2) provide fast performance for in-memory data by writing key
pieces of code in C++; 3) use the same code interface to work with data no
matter where it is stored, whether in a data frame, a data table or
database.")
(license license:expat)))
(define-public r-dbplyr
(package
(name "r-dbplyr")
(version "1.4.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "dbplyr" version))
(sha256
(base32
"1v0p0557n6bz84nq9jc4182k00mdd1hvz7h4w3bbg81z0fmpj0d8"))))
(build-system r-build-system)
(propagated-inputs
`(("r-assertthat" ,r-assertthat)
("r-blob" ,r-blob)
("r-dbi" ,r-dbi)
("r-dplyr" ,r-dplyr)
("r-glue" ,r-glue)
("r-lifecycle" ,r-lifecycle)
("r-magrittr" ,r-magrittr)
("r-purrr" ,r-purrr)
("r-r6" ,r-r6)
("r-rlang" ,r-rlang)
("r-tibble" ,r-tibble)
("r-tidyselect" ,r-tidyselect)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/tidyverse/dbplyr")
(synopsis "Dplyr back end for databases")
(description
"This package provides a dplyr back end for databases that allows you to
work with remote database tables as if they are in-memory data frames. Basic
features works with any database that has a @code{DBI} back end; more advanced
features require SQL translation to be provided by the package author.")
(license license:expat)))
(define-public r-acepack
(package
(name "r-acepack")
(version "1.4.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "acepack" version))
(sha256
(base32
"1f98rpfjmhd92rdc3j004plyfpjailz6j0ycysbac0kgj83haxc2"))))
(build-system r-build-system)
(inputs
`(("gfortran" ,gfortran)))
(home-page "https://cran.r-project.org/web/packages/acepack")
(synopsis "Functions for regression transformations")
(description
"This package provides ACE and AVAS methods for choosing regression
transformations.")
(license license:expat)))
(define-public r-formula
(package
(name "r-formula")
(version "1.2-3")
(source
(origin
(method url-fetch)
(uri (cran-uri "Formula" version))
(sha256
(base32
"0wiqh8rr9d5ciy80wj8f5fnmiiw0ywanvvnhkwd622dx42dk848l"))))
(properties `((upstream-name . "Formula")))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/Formula")
(synopsis "Extended model formulas")
(description
"This package provides a new class @code{Formula}, which extends the base
class @code{formula}. It supports extended formulas with multiple parts of
regressors on the right-hand side and/or multiple responses on the left-hand
side.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-locfit
(package
(name "r-locfit")
(version "1.5-9.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "locfit" version))
(sha256
(base32
"1vcw16qww4v4547w0gfvhqg60l051bsdlxa6zfcgcj9xbxf6dlyr"))))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
(home-page "https://cran.r-project.org/web/packages/locfit")
(synopsis "Local regression, likelihood and density estimation")
(description
"This package provides functions used for local regression, likelihood
and density estimation.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-chron
(package
(name "r-chron")
(version "2.3-55")
(source (origin
(method url-fetch)
(uri (cran-uri "chron" version))
(sha256
(base32
"09gbs7c1ynlg0kl1m6nkbn75ysk16g13r17snnaws64qwywiywqg"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/chron")
(synopsis "Chronological R objects which can handle dates and times")
(description
"This package provides chronological R objects which can handle dates and
times.")
(license license:gpl2)))
(define-public r-data-table
(package
(name "r-data-table")
(version "1.12.8")
(source (origin
(method url-fetch)
(uri (cran-uri "data.table" version))
(sha256
(base32
"1p7rf4v3ysflpgcmy9krkwmcy7z22wb08xm443649waz6lx5z9yk"))))
(build-system r-build-system)
(inputs
`(("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)))
(home-page "https://github.com/Rdatatable/data.table/wiki")
(synopsis "Enhanced version of data.frame R object")
(description
"The R package @code{data.table} is an extension of @code{data.frame}
providing functions for fast aggregation of large data (e.g. 100GB in RAM),
fast ordered joins, fast add/modify/delete of columns by group, column listing
and fast file reading.")
(license license:gpl3+)))
(define-public r-xtable
(package
(name "r-xtable")
(version "1.8-4")
(source
(origin
(method url-fetch)
(uri (cran-uri "xtable" version))
(sha256
(base32
"077xfm0gphvhsay75amd9v90zk57kjgrrlgih04fyrbqqblc1gjs"))))
(build-system r-build-system)
(native-inputs
`(("r-knitr" ,r-knitr))) ; for vignettes
(home-page "http://xtable.r-forge.r-project.org/")
(synopsis "Export R tables to LaTeX or HTML")
(description
"This package provides tools to export R data as LaTeX and HTML tables.")
(license license:gpl2+)))
(define-public python-patsy
(package
(name "python-patsy")
(version "0.5.1")
(source (origin
(method url-fetch)
(uri (pypi-uri "patsy" version))
(sha256
(base32
"149rbrdzwns0ay88caf1zsm1r53v1q5np1mrb36na50y432cw5gi"))))
(build-system python-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(replace 'check
(lambda _ (invoke "nosetests" "-v"))))))
(propagated-inputs
`(("python-numpy" ,python-numpy)
("python-scipy" ,python-scipy)
("python-six" ,python-six)))
(native-inputs
`(("python-nose" ,python-nose)))
(home-page "https://github.com/pydata/patsy")
(synopsis "Describe statistical models and build design matrices")
(description
"Patsy is a Python package for describing statistical models and for
building design matrices.")
;; The majority of the code is distributed under BSD-2. The module
;; patsy.compat contains code derived from the Python standard library,
;; and is covered by the PSFL.
(license (list license:bsd-2 license:psfl))))
(define-public python2-patsy
(package-with-python2 python-patsy))
(define-public python-statsmodels
(package
(name "python-statsmodels")
(version "0.11.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "statsmodels" version))
(sha256
(base32
"1w6mf8b86vizi2895j11szqryr2v1ckjig3wp9fv94aslfh3zpjv"))))
(build-system python-build-system)
(arguments
`(;; The test suite is very large and rather brittle. Tests often fail
;; because of minor changes in dependencies that upstream hasn't fixed
;; in a new release.
#:tests? #f
#:phases
(modify-phases %standard-phases
(add-after 'unpack 'set-matplotlib-backend-to-agg
(lambda _
;; Set the matplotlib backend to Agg to avoid problems using the
;; GTK backend without a display.
(substitute* (append (find-files "statsmodels/graphics/tests" "\\.py")
'("statsmodels/tsa/vector_ar/tests/test_var.py"
"statsmodels/duration/tests/test_survfunc.py"))
(("import matplotlib\\.pyplot as plt" line)
(string-append "import matplotlib;matplotlib.use('Agg');"
line)))
#t)))))
(propagated-inputs
`(("python-numpy" ,python-numpy)
("python-scipy" ,python-scipy)
("python-pandas" ,python-pandas)
("python-patsy" ,python-patsy)
("python-matplotlib" ,python-matplotlib)))
(native-inputs
`(("python-cython" ,python-cython)
("python-nose" ,python-nose)
("python-sphinx" ,python-sphinx)))
(home-page "http://statsmodels.sourceforge.net/")
(synopsis "Statistical modeling and econometrics in Python")
(description
"Statsmodels is a Python package that provides a complement to scipy for
statistical computations including descriptive statistics and estimation and
inference for statistical models.")
(license license:bsd-3)))
(define-public python2-statsmodels
(let ((stats (package-with-python2 python-statsmodels)))
(package (inherit stats)
(propagated-inputs
`(("python2-pytz" ,python2-pytz)
("python2-numpy" ,python2-numpy)
("python2-scipy" ,python2-scipy)
("python2-pandas" ,python2-pandas)
("python2-patsy" ,python2-patsy)
("python2-matplotlib" ,python2-matplotlib))))))
(define-public r-coda
(package
(name "r-coda")
(version "0.19-3")
(source (origin
(method url-fetch)
(uri (cran-uri "coda" version))
(sha256
(base32
"1mn50bshky968gn4nf6vnkaa768fnvm1xmhkms7szwdw9341zpyk"))))
(build-system r-build-system)
(propagated-inputs
`(("r-lattice" ,r-lattice)))
(home-page "https://cran.r-project.org/web/packages/coda")
(synopsis "This is a package for Output Analysis and Diagnostics for MCMC")
(description "This package provides functions for summarizing and plotting
the output from Markov Chain Monte Carlo (MCMC) simulations, as well as
diagnostic tests of convergence to the equilibrium distribution of the Markov
chain.")
(license license:gpl2+)))
(define-public r-ade4
(package
(name "r-ade4")
(version "1.7-15")
(source
(origin
(method url-fetch)
(uri (cran-uri "ade4" version))
(sha256
(base32
"1xpxznlqm8wb4d5z2dcrl0wi3jjciq2hr5rcx2b5aaipiiyzm1ij"))))
(build-system r-build-system)
(propagated-inputs
`(("r-mass" ,r-mass)
("r-pixmap" ,r-pixmap)
("r-sp" ,r-sp)))
(home-page "http://pbil.univ-lyon1.fr/ADE-4")
(synopsis "Multivariate data analysis and graphical display")
(description
"The ade4 package contains data analysis functions to analyze ecological
and environmental data in the framework of Euclidean exploratory methods.")
(license license:gpl2+)))
(define-public r-xml2
(package
(name "r-xml2")
(version "1.3.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "xml2" version))
(sha256
(base32
"1kx400v62xkd5xal7rzz7jcarz94ac8g1sh4i2dqr78qwgkzj8nz"))))
(build-system r-build-system)
(inputs
`(("libxml2" ,libxml2)
("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)
("r-knitr" ,r-knitr)))
(home-page "https://github.com/hadley/xml2")
(synopsis "Parse XML with R")
(description
"This package provides a simple, consistent interface to working with XML
files in R. It is built on top of the libxml2 C library.")
(license license:gpl2+)))
(define-public r-multitaper
(package
(name "r-multitaper")
(version "1.0-14")
(source
(origin
(method url-fetch)
(uri (cran-uri "multitaper" version))
(sha256
(base32
"04wd9bbhyx7697pfy0fpj02v1csr48hkpqj62h9p8a6w84ji4k68"))))
(build-system r-build-system)
(native-inputs
`(("gfortran" ,gfortran)))
(home-page "https://github.com/wesleyburr/multitaper/")
(synopsis "Multitaper spectral analysis tools")
(description
"This package implements multitaper spectral estimation
techniques using prolate spheroidal sequences (Slepians) and sine
tapers for time series analysis. It includes an adaptive weighted
multitaper spectral estimate, a coherence estimate, Thomson's Harmonic
F-test, and complex demodulation. The Slepians sequences are
generated efficiently using a tridiagonal matrix solution, and
jackknifed confidence intervals are available for most estimates.")
(license license:gpl2+)))
(define-public r-rversions
(package
(name "r-rversions")
(version "2.0.2")
(source (origin
(method url-fetch)
(uri (cran-uri "rversions" version))
(sha256
(base32
"0ghpla5r3d6zh5dn6d6ii5p0a952lcdv004m88fk8r9k76vz88rm"))))
(build-system r-build-system)
(propagated-inputs
`(("r-curl" ,r-curl)
("r-xml2" ,r-xml2)))
(home-page "https://github.com/metacran/rversions")
(synopsis "Query R versions, including 'r-release' and 'r-oldrel'")
(description
"This package provides functions to query the main R repository to find
the versions that @code{r-release} and @code{r-oldrel} refer to, and also all
previous R versions and their release dates.")
(license license:expat)))
(define-public r-whisker
(package
(name "r-whisker")
(version "0.4")
(source (origin
(method url-fetch)
(uri (cran-uri "whisker" version))
(sha256
(base32
"1a7vz0dk95xfjvi38wbpw8vmf5qn3g8p490msz2rw0piwidmk1ks"))))
(build-system r-build-system)
(home-page "https://github.com/edwindj/whisker")
(synopsis "Logicless mustache templating for R")
(description
"This package provides logicless templating, with a syntax that is not
limited to R.")
(license license:gpl3+)))
(define-public r-backports
(package
(name "r-backports")
(version "1.1.8")
(source
(origin
(method url-fetch)
(uri (cran-uri "backports" version))
(sha256
(base32
"1irc9c23hwliwkky1b3hi0dkzwalhb7zgjj08562ff1k8dqv4qf6"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/backports")
(synopsis "Reimplementations of functions introduced since R 3.0.0")
(description
"Provides implementations of functions which have been introduced in R
since version 3.0.0. The backports are conditionally exported which results
in R resolving the function names to the version shipped with R (if available)
and uses the implemented backports as fallback. This way package developers
can make use of the new functions without worrying about the minimum required
R version.")
(license license:gpl2+)))
(define-public r-checkmate
(package
(name "r-checkmate")
(version "2.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "checkmate" version))
(sha256
(base32
"193gkifr9spp0x0rwnjq1spdhjkfkh4mv27iklskcj604075phhd"))))
(build-system r-build-system)
(propagated-inputs
`(("r-backports" ,r-backports)))
(home-page "https://github.com/mllg/checkmate")
(synopsis "Fast and versatile argument checks")
(description
"This package provides tests and assertions to perform frequent argument
checks. A substantial part of the package was written in C to minimize any
worries about execution time overhead.")
(license license:bsd-3)))
(define-public r-bbmisc
(package
(name "r-bbmisc")
(version "1.11")
(source
(origin
(method url-fetch)
(uri (cran-uri "BBmisc" version))
(sha256
(base32
"1lh1n4bvxzivb5rbz69mvd8xdgr3gr2bnqd68a39sd1530l8r90y"))))
(properties `((upstream-name . "BBmisc")))
(build-system r-build-system)
(propagated-inputs
`(("r-checkmate" ,r-checkmate)))
(home-page "https://github.com/berndbischl/BBmisc")
(synopsis "Miscellaneous functions for R package development")
(description
"This package provides miscellaneous helper functions for the development
of R packages.")
(license license:bsd-3)))
(define-public r-fail
(package
(name "r-fail")
(version "1.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "fail" version))
(sha256
(base32
"0vfm6kmpmgsamda5p0sl771kbnsscan31l2chzssyw93kwmams7d"))))
(build-system r-build-system)
(propagated-inputs
`(("r-bbmisc" ,r-bbmisc)
("r-checkmate" ,r-checkmate)))
(home-page "https://github.com/mllg/fail")
(synopsis "File abstraction interface layer (FAIL)")
(description
"This package provides a more comfortable interface to work with R data
or source files in a key-value fashion.")
(license license:bsd-3)))
(define-public r-batchjobs
(package
(name "r-batchjobs")
(version "1.8")
(source
(origin
(method url-fetch)
(uri (cran-uri "BatchJobs" version))
(sha256
(base32
"1zz4sspj596pijxlz321g0jy2rg9ki83j6fihbwisjwr66p2vk1m"))))
(properties `((upstream-name . "BatchJobs")))
(build-system r-build-system)
(propagated-inputs
`(("r-backports" ,r-backports)
("r-bbmisc" ,r-bbmisc)
("r-brew" ,r-brew)
("r-checkmate" ,r-checkmate)
("r-data-table" ,r-data-table)
("r-dbi" ,r-dbi)
("r-digest" ,r-digest)
("r-rsqlite" ,r-rsqlite)
("r-sendmailr" ,r-sendmailr)
("r-stringi" ,r-stringi)))
(home-page "https://github.com/tudo-r/BatchJobs")
(synopsis "Batch computing with R")
(description
"This package provides @code{Map}, @code{Reduce} and @code{Filter}
variants to generate jobs on batch computing systems like PBS/Torque, LSF,
SLURM and Sun Grid Engine. Multicore and SSH systems are also supported.")
(license license:bsd-2)))
(define-public r-brew
(package
(name "r-brew")
(version "1.0-6")
(source (origin
(method url-fetch)
(uri (cran-uri "brew" version))
(sha256
(base32
"1vghazbcha8gvkwwcdagjvzx6yl8zm7kgr0i9wxr4jng06d1l3fp"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/brew")
(synopsis "Templating framework for report generation")
(description
"The brew package implements a templating framework for mixing text and R
code for report generation. The template syntax is similar to PHP, Ruby's erb
module, Java Server Pages, and Python's psp module.")
(license license:gpl2+)))
(define-public r-desc
(package
(name "r-desc")
(version "1.2.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "desc" version))
(sha256
(base32
"1s6s13fk6sxwcj8wzkwxl9vr33153xx11p5wi9avqx3rzkabavz6"))))
(build-system r-build-system)
(propagated-inputs
`(("r-assertthat" ,r-assertthat)
("r-crayon" ,r-crayon)
("r-r6" ,r-r6)
("r-rprojroot" ,r-rprojroot)))
(home-page "https://github.com/r-pkgs/desc")
(synopsis "Manipulate DESCRIPTION Files")
(description
"This package provides tools to read, write, create, and manipulate
DESCRIPTION files. It is intended for packages that create or manipulate
other packages.")
(license license:expat)))
(define-public r-commonmark
(package
(name "r-commonmark")
(version "1.7")
(source
(origin
(method url-fetch)
(uri (cran-uri "commonmark" version))
(sha256
(base32
"024iz1qp2kv6iz6y69ir0jk3qhjps86rhkzlcmhqsxx97rx7cjni"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/commonmark")
(synopsis "CommonMark and Github Markdown Rendering in R")
(description
"The CommonMark specification defines a rationalized version of markdown
syntax. This package uses the @code{cmark} reference implementation for
converting markdown text into various formats including HTML, LaTeX and groff
man. In addition, it exposes the markdown parse tree in XML format. The latest
version of this package also adds support for Github extensions including
tables, autolinks and strikethrough text.")
(license license:bsd-2)))
(define-public r-roxygen2
(package
(name "r-roxygen2")
(version "7.1.1")
(source (origin
(method url-fetch)
(uri (cran-uri "roxygen2" version))
(sha256
(base32
"0qc8akwfwmaqsjaza87f5fi0zk6sh3l6j3assbs6chvx0gnmvidx"))))
(build-system r-build-system)
(propagated-inputs
`(("r-brew" ,r-brew)
("r-commonmark" ,r-commonmark)
("r-desc" ,r-desc)
("r-digest" ,r-digest)
("r-knitr" ,r-knitr)
("r-pkgload" ,r-pkgload)
("r-purrr" ,r-purrr)
("r-r6" ,r-r6)
("r-rcpp" ,r-rcpp)
("r-rlang" ,r-rlang)
("r-stringi" ,r-stringi)
("r-stringr" ,r-stringr)
("r-xml2" ,r-xml2)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/klutometis/roxygen")
(synopsis "In-source documentation system for R")
(description
"Roxygen2 is a Doxygen-like in-source documentation system for Rd,
collation, and NAMESPACE files.")
(license license:gpl2+)))
(define-public r-openssl
(package
(name "r-openssl")
(version "1.4.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "openssl" version))
(sha256
(base32
"17fkc6pr8w5z3rpadg692a689p1v4j7xl5ak0y64is7c74cxgljx"))))
(build-system r-build-system)
(inputs
`(("libressl" ,libressl)))
(native-inputs
`(("pkg-config" ,pkg-config)
("r-knitr" ,r-knitr)))
(propagated-inputs
`(("r-askpass" ,r-askpass)))
(home-page "https://github.com/jeroenooms/openssl")
(synopsis "Toolkit for encryption, signatures and certificates")
(description
"This package provides R bindings to OpenSSL libssl and libcrypto, plus
custom SSH pubkey parsers. It supports RSA, DSA and NIST curves P-256, P-384
and P-521. Cryptographic signatures can either be created and verified
manually or via x509 certificates. AES block cipher is used in CBC mode for
symmetric encryption; RSA for asymmetric (public key) encryption. High-level
envelope functions combine RSA and AES for encrypting arbitrary sized data.
Other utilities include key generators, hash functions (md5, sha1, sha256,
etc), base64 encoder, a secure random number generator, and @code{bignum} math
methods for manually performing crypto calculations on large multibyte
integers.")
(license license:expat)))
(define-public r-httr
(package
(name "r-httr")
(version "1.4.1")
(source (origin
(method url-fetch)
(uri (cran-uri "httr" version))
(sha256
(base32
"0mp1il13q6n49n2hv1p2p8x6avjan6dr5az19ql4hb78pc3pwp37"))))
(build-system r-build-system)
(propagated-inputs
`(("r-curl" ,r-curl)
("r-jsonlite" ,r-jsonlite)
("r-openssl" ,r-openssl)
("r-mime" ,r-mime)
("r-r6" ,r-r6)))
(home-page "https://github.com/hadley/httr")
(synopsis "Tools for working with URLs and HTTP")
(description
"The aim of httr is to provide a wrapper for RCurl customised to the
demands of modern web APIs. It provides useful tools for working with HTTP
organised by HTTP verbs (@code{GET()}, @code{POST()}, etc). Configuration
functions make it easy to control additional request components.")
(license license:expat)))
(define-public r-git2r
(package
(name "r-git2r")
(version "0.27.1")
(source (origin
(method url-fetch)
(uri (cran-uri "git2r" version))
(sha256
(base32
"1h1vfzym6hi1fqs9p5z5v0f4xldggr425frw8k6dsidah3qhg4h9"))))
(build-system r-build-system)
(inputs
`(("libgit2" ,libgit2)
("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)))
(home-page "https://github.com/ropensci/git2r")
(synopsis "Access Git repositories with R")
(description
"This package provides an R interface to the libgit2 library, which is a
pure C implementation of the Git core methods.")
;; GPLv2 only with linking exception.
(license license:gpl2)))
(define-public r-rstudioapi
(package
(name "r-rstudioapi")
(version "0.11")
(source (origin
(method url-fetch)
(uri (cran-uri "rstudioapi" version))
(sha256
(base32
"0srh0m4mw4k6s7spwb84l4cx4xnn04cp5cjxi0fwza7bwavpzq0k"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/rstudioapi")
(synopsis "Safely access the RStudio API")
(description
"This package provides functions to access the RStudio API and provide
informative error messages when it's not available.")
(license license:expat)))
(define-public r-devtools
(package
(name "r-devtools")
(version "2.3.0")
(source (origin
(method url-fetch)
(uri (cran-uri "devtools" version))
(sha256
(base32
"1l6w765q180bg5mmdq5k2ymf6apz7ldhnknzf6ynfp1kf70pbhsg"))))
(build-system r-build-system)
(propagated-inputs
`(("r-callr" ,r-callr)
("r-cli" ,r-cli)
("r-covr" ,r-covr)
("r-crayon" ,r-crayon)
("r-desc" ,r-desc)
("r-digest" ,r-digest)
("r-dt" ,r-dt)
("r-ellipsis" ,r-ellipsis)
("r-glue" ,r-glue)
("r-git2r" ,r-git2r)
("r-httr" ,r-httr)
("r-jsonlite" ,r-jsonlite)
("r-memoise" ,r-memoise)
("r-pkgbuild" ,r-pkgbuild)
("r-pkgload" ,r-pkgload)
("r-rcmdcheck" ,r-rcmdcheck)
("r-remotes" ,r-remotes)
("r-rlang" ,r-rlang)
("r-roxygen2" ,r-roxygen2)
("r-rstudioapi" ,r-rstudioapi)
("r-rversions" ,r-rversions)
("r-sessioninfo" ,r-sessioninfo)
("r-testthat" ,r-testthat)
("r-usethis" ,r-usethis)
("r-withr" ,r-withr)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/hadley/devtools")
(synopsis "Tools to make developing R packages easier")
(description "The devtools package is a collection of package development
tools to simplify the devolpment of R packages.")
(license license:gpl2+)))
(define-public r-withr
(package
(name "r-withr")
(version "2.2.0")
(source (origin
(method url-fetch)
(uri (cran-uri "withr" version))
(sha256
(base32
"10mmfffjbnb2zq5x0kqhhb4z6va4micc6pjzvlfji34gyhffa8ac"))))
(build-system r-build-system)
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://github.com/jimhester/withr")
(synopsis "Run code with temporarily modified global state")
(description
"This package provides a set of functions to run R code in an environment
in which global state has been temporarily modified. Many of these functions
were originally a part of the r-devtools package.")
(license license:gpl2+)))
(define-public r-hms
(package
(name "r-hms")
(version "0.5.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "hms" version))
(sha256
(base32
"1baki0qw5ijgiflvsdvqj3apg4yanf12vx14kwbqdzk5rz46fasf"))))
(build-system r-build-system)
(propagated-inputs
`(("r-rlang" ,r-rlang)
("r-pkgconfig" ,r-pkgconfig)
("r-vctrs" ,r-vctrs)))
(home-page "https://github.com/rstats-db/hms")
(synopsis "Pretty time of day")
(description
"This package implements an S3 class for storing and formatting
time-of-day values, based on the @code{difftime} class.")
(license license:gpl3+)))
(define-public r-readr
(package
(name "r-readr")
(version "1.3.1")
(source (origin
(method url-fetch)
(uri (cran-uri "readr" version))
(sha256
(base32
"1wz496rw0ah433p755n3xac8gh7yzid4xgdjzd1a7wmpkgilvy9k"))))
(build-system r-build-system)
(propagated-inputs
`(("r-clipr" ,r-clipr)
("r-crayon" ,r-crayon)
("r-rcpp" ,r-rcpp)
("r-hms" ,r-hms)
("r-tibble" ,r-tibble)
("r-r6" ,r-r6)
("r-bh" ,r-bh)))
(home-page "https://github.com/hadley/readr")
(synopsis "Read tabular data")
(description
"This package provides functions to read flat or tabular text files from
disk (or a connection).")
(license license:gpl2+)))
(define-public r-plotrix
(package
(name "r-plotrix")
(version "3.7-8")
(source (origin
(method url-fetch)
(uri (cran-uri "plotrix" version))
(sha256
(base32
"104llmr6dvlcnfpmd8zbdlv63k79djc4qqgadjavj4v4cmz1zkcc"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/plotrix")
(synopsis "Various plotting functions")
(description
"This package provides lots of plotting, various labeling, axis and color
scaling functions for R.")
(license license:gpl2+)))
(define-public r-gridbase
(package
(name "r-gridbase")
(version "0.4-7")
(source (origin
(method url-fetch)
(uri (cran-uri "gridBase" version))
(sha256
(base32
"09jzw4rzwf2y5lcz7b16mb68pn0fqigv34ff7lr6w3yi9k91i1xy"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/gridBase")
(synopsis "Integration of base and grid graphics")
(description
"This package provides an integration of base and grid graphics for R.")
(license license:gpl2+)))
(define-public r-latticeextra
(package
(name "r-latticeextra")
(version "0.6-29")
(source
(origin
(method url-fetch)
(uri (cran-uri "latticeExtra" version))
(sha256
(base32
"04fzwcqs594rk5qp98yilh3kdh3sw4xf8wld5rp94ggpaqfw7bbc"))))
(properties `((upstream-name . "latticeExtra")))
(build-system r-build-system)
(propagated-inputs
`(("r-jpeg" ,r-jpeg)
("r-lattice" ,r-lattice)
("r-png" ,r-png)
("r-rcolorbrewer" ,r-rcolorbrewer)))
(home-page "http://latticeextra.r-forge.r-project.org/")
(synopsis "Extra graphical utilities based on lattice")
(description
"Building on the infrastructure provided by the lattice package, this
package provides several new high-level graphics functions and methods, as
well as additional utilities such as panel and axis annotation functions.")
(license license:gpl2+)))
(define-public r-rcpparmadillo
(package
(name "r-rcpparmadillo")
(version "0.9.900.1.0")
(source (origin
(method url-fetch)
(uri (cran-uri "RcppArmadillo" version))
(sha256
(base32
"1zisw2yrb9qmmrs7q8y83mrm7lh1c2786h70gs8jwc0si16x0lq5"))))
(properties `((upstream-name . "RcppArmadillo")))
(build-system r-build-system)
(propagated-inputs
`(("r-rcpp" ,r-rcpp)))
(home-page "https://github.com/RcppCore/RcppArmadillo")
(synopsis "Rcpp integration for the Armadillo linear algebra library")
(description
"Armadillo is a templated C++ linear algebra library that aims towards a
good balance between speed and ease of use. Integer, floating point and
complex numbers are supported, as well as a subset of trigonometric and
statistics functions. Various matrix decompositions are provided through
optional integration with LAPACK and ATLAS libraries. This package includes
the header files from the templated Armadillo library.")
;; Armadillo is licensed under the MPL 2.0, while RcppArmadillo (the Rcpp
;; bindings to Armadillo) is licensed under the GNU GPL version 2 or
;; later, as is the rest of 'Rcpp'.
(license license:gpl2+)))
(define-public r-bitops
(package
(name "r-bitops")
(version "1.0-6")
(source (origin
(method url-fetch)
(uri (cran-uri "bitops" version))
(sha256
(base32
"176nr5wpnkavn5z0yy9f7d47l37ndnn2w3gv854xav8nnybi6wwv"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/bitops")
(synopsis "Bitwise operations")
(description
"This package provides functions for bitwise operations on integer
vectors.")
(license license:gpl2+)))
(define-public r-catools
(package
(name "r-catools")
(version "1.18.0")
(source (origin
(method url-fetch)
(uri (cran-uri "caTools" version))
(sha256
(base32
"0y1kgyiy322yhb0phzwvf2zgjz9awp13lhzhk9v1ddg88656jhq3"))))
(properties `((upstream-name . "caTools")))
(build-system r-build-system)
(propagated-inputs
`(("r-bitops" ,r-bitops)))
(home-page "https://cran.r-project.org/web/packages/caTools")
(synopsis "Various tools including functions for moving window statistics")
(description
"This package contains several basic utility functions including:
moving (rolling, running) window statistic functions, read/write for GIF and
ENVI binary files, fast calculation of AUC, LogitBoost classifier, base64
encoder/decoder, round-off-error-free sum and cumsum, etc.")
(license license:gpl3+)))
(define-public r-rprojroot
(package
(name "r-rprojroot")
(version "1.3-2")
(source
(origin
(method url-fetch)
(uri (cran-uri "rprojroot" version))
(sha256
(base32
"12r3fdxmi2pmwn6ic3rhg0b20ll5z420m0d8fziv1n21961namnz"))))
(build-system r-build-system)
(propagated-inputs
`(("r-backports" ,r-backports)))
(home-page "https://github.com/krlmlr/rprojroot")
(synopsis "Finding files in project subdirectories")
(description
"This package helps accessing files relative to a project root. It
provides helpers for robust, reliable and flexible paths to files below a
project root. The root of a project is defined as a directory that matches a
certain criterion, e.g., it contains a certain regular file.")
(license license:gpl3)))
(define-public r-rmarkdown
(package
(name "r-rmarkdown")
(version "2.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "rmarkdown" version))
(sha256
(base32 "0vdjq4kcyxkr2m27588kk6yi5g53symjshj4jz4n0j18wz53shji"))))
(properties `((upstream-name . "rmarkdown")))
(build-system r-build-system)
(propagated-inputs
`(("r-base64enc" ,r-base64enc)
("r-evaluate" ,r-evaluate)
("r-htmltools" ,r-htmltools)
("r-jsonlite" ,r-jsonlite)
("r-knitr" ,r-knitr)
("r-mime" ,r-mime)
("r-stringr" ,r-stringr)
("r-tinytex" ,r-tinytex)
("r-xfun" ,r-xfun)
("r-yaml" ,r-yaml)
("ghc-pandoc" ,ghc-pandoc)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://rmarkdown.rstudio.com")
(synopsis "Convert R Markdown documents into a variety of formats")
(description
"This package provides tools to convert R Markdown documents into a
variety of formats.")
(license license:gpl3+)))
(define-public r-gtable
(package
(name "r-gtable")
(version "0.3.0")
(source (origin
(method url-fetch)
(uri (cran-uri "gtable" version))
(sha256
(base32
"1lyncxf2dqdjgw1071cn9c8zwzkz6sldnd5cgmicf70bc726qf7x"))))
(properties `((upstream-name . "gtable")))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/gtable")
(synopsis "R library to arrange grobs in tables")
(description
"Gtable is a collection of tools to make it easier to work with
\"tables\" of grobs.")
(license license:gpl2+)))
(define-public r-gridextra
(package
(name "r-gridextra")
(version "2.3")
(source (origin
(method url-fetch)
(uri (cran-uri "gridExtra" version))
(sha256
(base32
"0fwfk3cdwxxim7nd55pn7m31bcaqj48y06j7an2k1v1pybk0rdl1"))))
(properties `((upstream-name . "gridExtra")))
(build-system r-build-system)
(propagated-inputs
`(("r-gtable" ,r-gtable)))
(native-inputs
`(("r-knitr" ,r-knitr))) ;for building vignettes
(home-page "https://github.com/baptiste/gridextra")
(synopsis "Miscellaneous functions for \"Grid\" graphics")
(description
"This package provides a number of user-level functions to work with
@code{grid} graphics, notably to arrange multiple grid-based plots on a page,
and draw tables.")
(license license:gpl2+)))
(define-public r-pkgconfig
(package
(name "r-pkgconfig")
(version "2.0.3")
(source (origin
(method url-fetch)
(uri (cran-uri "pkgconfig" version))
(sha256
(base32
"0l1qph8zyi2sic3k2qcd7vlfl7rzfh1q7z7zvjkl5f7y1x2fy3rk"))))
(build-system r-build-system)
(home-page "https://github.com/gaborcsardi/pkgconfig")
(synopsis "Private configuration for R packages")
(description "This package provides the functionality to set configuration
options on a per-package basis. Options set by a given package only apply to
that package, other packages are unaffected.")
(license license:expat)))
(define-public r-blob
(package
(name "r-blob")
(version "1.2.1")
(source (origin
(method url-fetch)
(uri (cran-uri "blob" version))
(sha256
(base32
"1slb5mvxfyi92i8ifx2qa31hp57inilwhq1g9lzvgha6jrxbqm7g"))))
(build-system r-build-system)
(propagated-inputs
`(("r-rlang" ,r-rlang)
("r-vctrs" ,r-vctrs)))
(home-page "https://github.com/hadley/blob")
(synopsis "Simple S3 Class for representing vectors of binary data")
(description "Raw vectors in R are useful for storing a single binary
object. What if you want to put a vector of them in a data frame? The blob
package provides the blob object, a list of raw vectors, suitable for use as
a column in data frame.")
(license license:gpl3+)))
(define-public r-rsqlite
(package
(name "r-rsqlite")
(version "2.2.0")
(source (origin
(method url-fetch)
(uri (cran-uri "RSQLite" version))
(sha256
(base32
"1m38sj8rwbf3p2lhqabcp7c7djk7s9ng37cz39yxk706v9pi4380"))))
(properties `((upstream-name . "RSQLite")))
(build-system r-build-system)
(propagated-inputs
`(("r-dbi" ,r-dbi)
("r-bh" ,r-bh)
("r-memoise" ,r-memoise)
("r-plogr" ,r-plogr)
("r-rcpp" ,r-rcpp)
("r-bit64" ,r-bit64)
("r-blob" ,r-blob)
("r-pkgconfig" ,r-pkgconfig)))
(home-page "https://github.com/rstats-db/RSQLite")
(synopsis "SQLite interface for R")
(description
"This package embeds the SQLite database engine in R and provides an
interface compliant with the DBI package. The source for the SQLite
engine (version 3.8.8.2) is included.")
(license license:lgpl2.0+)))
(define-public r-rcurl
(package
(name "r-rcurl")
(version "1.95-0.1.2")
(source (origin
(method url-fetch)
(uri (string-append "https://www.bioconductor.org/packages/"
"release/extra/src/"
"contrib/RCurl_" version ".tar.gz"))
(sha256
(base32
"0l7qi45jxlf898n0jazabnam1yyczvqfdknd00bdirhhiplpd1sc"))))
(properties `((upstream-name . "RCurl")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'respect-CURL_CA_BUNDLE
(lambda _
(substitute* "R/options.S"
(("\\.els = rev\\(merge\\(list\\(\\.\\.\\.\\), \\.opts\\)\\)" m)
(string-append "\
certs = Sys.getenv(\"CURL_CA_BUNDLE\")
if (certs != \"\") { .opts = merge.list(.opts, list(cainfo=certs)) }
" m)))
#t)))))
(inputs
`(("libcurl" ,curl)))
(propagated-inputs
`(("r-bitops" ,r-bitops)))
(home-page "http://www.omegahat.org/RCurl")
(synopsis "General network client interface for R")
(description
"The package allows one to compose general HTTP requests and provides
convenient functions to fetch URIs, GET and POST forms, etc. and process the
results returned by the Web server. This provides a great deal of control
over the HTTP/FTP/... connection and the form of the request while providing a
higher-level interface than is available just using R socket connections.
Additionally, the underlying implementation is robust and extensive,
supporting FTP/FTPS/TFTP (uploads and downloads), SSL/HTTPS, telnet, dict,
ldap, and also supports cookies, redirects, authentication, etc.")
(license license:bsd-3)))
(define-public r-xml
(package
(name "r-xml")
(version "3.99-0.4")
(source (origin
(method url-fetch)
(uri (cran-uri "XML" version))
(sha256
(base32
"1bw6wr17gp0vdnxc5hip47n15nhxwacin3a5992sc7yfb55kaxm5"))))
(properties
`((upstream-name . "XML")))
(build-system r-build-system)
(inputs
`(("libxml2" ,libxml2)
("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)))
(home-page "http://www.omegahat.org/RSXML")
(synopsis "Tools for parsing and generating XML within R")
(description
"Many approaches for both reading and creating XML (and HTML)
documents (including DTDs), both local and accessible via HTTP or FTP. Also
offers access to an XPath \"interpreter\".")
(license license:bsd-2)))
(define-public r-xnomial
(package
(name "r-xnomial")
(version "1.0.4")
(source
(origin (method url-fetch)
(uri (cran-uri "XNomial" version))
(sha256
(base32
"1mwx302576rmsjllbq2clfxilm3hkyp5bw0wmwqbn0kgv5wpy8z6"))))
(properties (quasiquote ((upstream-name . "XNomial"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/XNomial")
(synopsis "Goodness-of-Fit test for multinomial data")
(description
"This package provides an exact Goodness-of-Fit test for
multinomial data with fixed probabilities. It can be used to
determine whether a set of counts fits a given expected ratio. To see
whether a set of observed counts fits an expectation, one can examine
all possible outcomes with @code{xmulti()} or a random sample of them
with @code{xmonte()} and find the probability of an observation
deviating from the expectation by at least as much as the observed.
As a measure of deviation from the expected, one can use the
log-likelihood ratio, the multinomial probability, or the classic
chi-square statistic. A histogram of the test statistic can also be
plotted and compared with the asymptotic curve.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-lambda-r
(package
(name "r-lambda-r")
(version "1.2.4")
(source (origin
(method url-fetch)
(uri (cran-uri "lambda.r" version))
(sha256
(base32
"1mh1g0gsd58gng0hb29vww2yqb2jfs07kba5kxnnqck5j3izwlnj"))))
(properties `((upstream-name . "lambda.r")))
(build-system r-build-system)
(propagated-inputs
`(("r-formatr" ,r-formatr)))
(home-page "https://cran.r-project.org/web/packages/lambda.r")
(synopsis "Functional programming extension for R")
(description
"This package provides a language extension to efficiently write
functional programs in R. Syntax extensions include multi-part function
definitions, pattern matching, guard statements, built-in (optional) type
safety.")
(license license:lgpl3+)))
(define-public r-futile-options
(package
(name "r-futile-options")
(version "1.0.1")
(source (origin
(method url-fetch)