diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 736 |
1 files changed, 656 insertions, 80 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 016d1b1e41..8144391729 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -43,6 +43,25 @@ #:use-module (gnu packages tls) #:use-module (gnu packages web)) +(define-public r-clipr + (package + (name "r-clipr") + (version "0.4.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "clipr" version)) + (sha256 + (base32 + "061x84ildc7g1p91yw5iyj8lpqdf4hqv36as85lw8c6qv9ywbsqv")))) + (build-system r-build-system) + (home-page "https://github.com/mdlincoln/clipr") + (synopsis "Read and write from the system clipboard") + (description + "This package provides simple utility functions to read from and write to +the system clipboards.") + (license license:gpl3))) + (define-public r-tidyverse (package (name "r-tidyverse") @@ -143,20 +162,23 @@ package is a port of the Python package @code{cssselect}.") (define-public r-reprex (package (name "r-reprex") - (version "0.1.2") + (version "0.2.0") (source (origin (method url-fetch) (uri (cran-uri "reprex" version)) (sha256 (base32 - "105d9vsmqfilgpw8psfb2wyiz1hvcycvh4cqhb3ab37lm3rcavvs")))) + "1l44pxjiz3g0jkk3v6rg5jps3llihfiah0qyv40s0bxvxa6gm8v9")))) (build-system r-build-system) (propagated-inputs `(("r-callr" ,r-callr) + ("r-clipr" ,r-clipr) ("r-knitr" ,r-knitr) + ("r-rlang" ,r-rlang) ("r-rmarkdown" ,r-rmarkdown) - ("r-whisker" ,r-whisker))) + ("r-whisker" ,r-whisker) + ("r-withr" ,r-withr))) (home-page "https://github.com/tidyverse/reprex") (synopsis "Prepare reproducible R code examples for sharing") (description @@ -171,17 +193,18 @@ such as copy/paste from an R session.") (define-public r-callr (package (name "r-callr") - (version "2.0.4") + (version "3.0.0") (source (origin (method url-fetch) (uri (cran-uri "callr" version)) (sha256 (base32 - "1053qqq632z94pqq2v5dynjpgyv1b1c8zvidmcllw7zn8zha8gqf")))) + "1rxbxy6kn7dj90z9hpppr9cnpvnxzknba2dwrdp0lrk5dh462qz3")))) (build-system r-build-system) (propagated-inputs - `(("r-r6" ,r-r6) + `(("r-base64enc" ,r-base64enc) + ("r-r6" ,r-r6) ("r-processx" ,r-processx))) (home-page "https://github.com/r-lib/callr#readme") (synopsis "Call R from R") @@ -369,14 +392,14 @@ colors are provided.") (define-public r-glue (package (name "r-glue") - (version "1.2.0") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "glue" version)) (sha256 (base32 - "0vi9y8ix95g6hjqdz9c9y4119apbdjcypdv0ag8cl6vaxqs5n9qr")))) + "1vhw5497lpfr4m8lcx9bs0fgdp4ax0sycrk6n8yksp33qd25m7kq")))) (build-system r-build-system) (home-page "https://github.com/tidyverse/glue") (synopsis "Interpreted string literals") @@ -430,14 +453,14 @@ error stream.") (define-public r-pls (package (name "r-pls") - (version "2.6-0") + (version "2.7-0") (source (origin (method url-fetch) (uri (cran-uri "pls" version)) (sha256 (base32 - "15j59p5x0rkdrk7iqzkipsy50rsyjl31w8zxc4w3v1j5gzxhi1rx")))) + "0xaqqgmdvfh7g7v1m4bcwjqzph68b9cq3bn4kjisfsadl54i5p2x")))) (build-system r-build-system) (home-page "http://mevik.net/work/software/pls.html") (synopsis "Partial Least Squares and Principal Component Regression") @@ -480,6 +503,60 @@ print, summary, plot, update, etc. 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") @@ -1678,14 +1755,14 @@ provided.") (define-public r-ipred (package (name "r-ipred") - (version "0.9-6") + (version "0.9-7") (source (origin (method url-fetch) (uri (cran-uri "ipred" version)) (sha256 (base32 - "1vrw1pqcpnc04x1r2h9grdfm6bivs358sww5gg90jwlvxcw69lxq")))) + "0q53cqs46501wsd4cmfsmr78l8nv1hkbamk9m0ns5qy02df5r254")))) (build-system r-build-system) (propagated-inputs `(("r-class" ,r-class) @@ -1739,22 +1816,23 @@ created using basic graphics.") (define-public r-broom (package (name "r-broom") - (version "0.4.5") + (version "0.5.0") (source (origin (method url-fetch) (uri (cran-uri "broom" version)) (sha256 (base32 - "1mrrqqw1bmjf2v88ziqwb5y86g29h0a3rsx2jpw0hrzrzb8i5kcb")))) + "1r3831vq0fd5sh5841xr844sghg88z7ws91hg4jgnzbbkxfjp4ag")))) (build-system r-build-system) (propagated-inputs - `(("r-dplyr" ,r-dplyr) + `(("r-backports" ,r-backports) + ("r-dplyr" ,r-dplyr) ("r-nlme" ,r-nlme) - ("r-plyr" ,r-plyr) - ("r-psych" ,r-psych) + ("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") @@ -1903,20 +1981,72 @@ 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 "2.6-3") + (version "2.6-4") (source (origin (method url-fetch) (uri (cran-uri "jomo" version)) (sha256 (base32 - "14s8q0j5zgl1g1pfxg3a4y1jzvs0wl61ir4992wsj7safskj7zvi")))) + "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") @@ -1932,14 +2062,14 @@ impute compatibly with the substantive model.") (define-public r-pan (package (name "r-pan") - (version "1.4") + (version "1.6") (source (origin (method url-fetch) (uri (cran-uri "pan" version)) (sha256 (base32 - "1p3nigmhrnlch86g89hn7l0wvkifx3k9n59g0psi95yck43kza76")))) + "1dk3jjj826p7xrz10qz04vyc068xnypg7bp0pj4c32z3da0xzh5d")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) (home-page "https://cran.r-project.org/web/packages/pan/") @@ -1977,14 +2107,14 @@ analysis of multiply imputed data sets.") (define-public r-mice (package (name "r-mice") - (version "3.1.0") + (version "3.3.0") (source (origin (method url-fetch) (uri (cran-uri "mice" version)) (sha256 (base32 - "0xpn215yfzib4hw09cwilnyg9zbvq460njavfvm84mvgwbm25byi")))) + "1p0ipbqk5aqdi7iikw3qrjyvdi9sdhpnw1h5mwakwvv0yl0pzbyx")))) (build-system r-build-system) (propagated-inputs `(("r-broom" ,r-broom) @@ -2182,17 +2312,16 @@ training models for classification or ranking.") (define-public r-xts (package (name "r-xts") - (version "0.10-2") + (version "0.11-0") (source (origin (method url-fetch) (uri (cran-uri "xts" version)) (sha256 (base32 - "1i11fczks4lh8rpi6xbm9bm7f3jpcp6xw03kv178g3n3361qhmc1")))) + "1v50yn4bsjzdyk7r90isn6dxmpkapillrhpx3gqsshd180vwzqk9")))) (build-system r-build-system) (propagated-inputs `(("r-zoo" ,r-zoo))) - (native-inputs `(("gfortran" ,gfortran))) (home-page "https://github.com/joshuaulrich/xts") (synopsis "Extensible time series") (description @@ -2669,18 +2798,19 @@ display.") (define-public r-pillar (package (name "r-pillar") - (version "1.2.3") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "pillar" version)) (sha256 (base32 - "1rzhssprqgam1nq3s0f5rzxhxsq02azcghvxf6k8kmsmddf1n7f8")))) + "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") @@ -2713,14 +2843,14 @@ terminals.") (define-public r-tinytex (package (name "r-tinytex") - (version "0.6") + (version "0.8") (source (origin (method url-fetch) (uri (cran-uri "tinytex" version)) (sha256 (base32 - "16y9dldaff2kx1fkm92p7zlph0dcrdmlmavpdgf5y9jbhmc8g83f")))) + "1bgpr5i5399jf9n6pg2mm4aamisbhppg082ad0wv1j4g0rlxf1gy")))) (build-system r-build-system) (propagated-inputs `(("r-xfun" ,r-xfun))) @@ -2737,17 +2867,18 @@ automatically.") (define-public r-metap (package (name "r-metap") - (version "0.9") + (version "1.0") (source (origin (method url-fetch) (uri (cran-uri "metap" version)) (sha256 (base32 - "03vg0mb6q7j2z0pkxykbak0hcp6dcak7zxs1lw9hswz9kqrq5jhz")))) + "18rzvqfzyk8fn54gjvy2qd21nk9w69j7ihww477ma3f3ab6i982h")))) (build-system r-build-system) (propagated-inputs - `(("r-lattice" ,r-lattice))) + `(("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 @@ -2781,14 +2912,14 @@ supports arbitrary vertex/edge/graph attributes.") (define-public r-statnet-common (package (name "r-statnet-common") - (version "4.1.2") + (version "4.1.4") (source (origin (method url-fetch) (uri (cran-uri "statnet.common" version)) (sha256 (base32 - "0h3g687214rlycca0fjrpy1lqbqsrginxqhmhl2mb2jinqqxcfgd")))) + "14dydm4c4dzc4v6ldxpn04q551nczzfablwibrd8lzgja8x9ksic")))) (properties `((upstream-name . "statnet.common"))) (build-system r-build-system) @@ -3010,21 +3141,20 @@ University Press, 2000.") (define-public r-tsa (package (name "r-tsa") - (version "1.01") + (version "1.2") (source (origin (method url-fetch) (uri (cran-uri "TSA" version)) (sha256 (base32 - "0cm97hwxm6vfgy9mc3kgwq6dnmn86p8a4avnfjbai048qnwrn6hx")))) + "0gjfqibwdznz0nka95k4fjm935svxjpnqfywwz403crn2lh30h6q")))) (properties `((upstream-name . "TSA"))) (build-system r-build-system) (propagated-inputs `(("r-leaps" ,r-leaps) ("r-locfit" ,r-locfit) - ("r-mgcv" ,r-mgcv) - ("r-tseries" ,r-tseries))) + ("r-mgcv" ,r-mgcv))) (home-page "http://www.stat.uiowa.edu/~kchan/TSA.htm") (synopsis "Time series analysis") (description @@ -3277,14 +3407,14 @@ exponentiation.") (define-public r-heatmaply (package (name "r-heatmaply") - (version "0.14.1") + (version "0.15.2") (source (origin (method url-fetch) (uri (cran-uri "heatmaply" version)) (sha256 (base32 - "03p2caclhfgqgpx3wwck5h06jy3mxgs05gjmwkb7hmwghkjh41jc")))) + "0h8s5djzj4mrmaswlcaap6jbwxrkbzc43bbqik3qf8vrqz335w04")))) (build-system r-build-system) (propagated-inputs `(("r-assertthat" ,r-assertthat) @@ -3633,14 +3763,14 @@ multivariate plot methods.") (define-public r-fnn (package (name "r-fnn") - (version "1.1") + (version "1.1.2.1") (source (origin (method url-fetch) (uri (cran-uri "FNN" version)) (sha256 (base32 - "1kncmiaraq1mrykb9fj3fsxswabk3l71fnp1vks0x9aay5xfk8mj")))) + "1n61jrcmakqif8f827x4qnlhm2jqpj5fgjj65c4p0kdd8lzw8pqp")))) (properties `((upstream-name . "FNN"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/FNN") @@ -3925,14 +4055,14 @@ simple method for converting between file types.") (define-public r-maptools (package (name "r-maptools") - (version "0.9-2") + (version "0.9-3") (source (origin (method url-fetch) (uri (cran-uri "maptools" version)) (sha256 (base32 - "075lmb3b62171cw2dg8fv1vwmvfzg39r1ji7jwb8s5k9dz88ry1v")))) + "0hxbv01im9zk1qrwgigpc510w6x0kzdzip4gx2jzfqmmwr8m17r8")))) (build-system r-build-system) (propagated-inputs `(("r-foreign" ,r-foreign) @@ -3953,14 +4083,14 @@ exchanging spatial objects with other R packages.") (define-public r-later (package (name "r-later") - (version "0.7.3") + (version "0.7.4") (source (origin (method url-fetch) (uri (cran-uri "later" version)) (sha256 (base32 - "04j2phymxgkk4hv9pfa5w3s98w5d7fvm11blrdhxmray4n618msw")))) + "125zc499gj702x2bch95lsfzk2qb4dzv3604x9afym2i3ylrmm64")))) (build-system r-build-system) (propagated-inputs `(("r-bh" ,r-bh) @@ -4047,33 +4177,6 @@ to the cluster management tool @code{sfCluster}, but can also used without it.") (license license:gpl2+))) -(define-public r-codedepends - (package - (name "r-codedepends") - (version "0.5-3") - (source - (origin - (method url-fetch) - (uri (cran-uri "CodeDepends" version)) - (sha256 - (base32 - "03p82s0abca2jimzqvxdzykfzca7c7fhm5xsjxybcksr4gggr5sc")))) - (properties `((upstream-name . "CodeDepends"))) - (build-system r-build-system) - (propagated-inputs - `(("r-codetools" ,r-codetools) - ("r-xml" ,r-xml))) - (home-page "http://cran.r-project.org/web/packages/CodeDepends") - (synopsis "Analysis of R code for reproducible research and code comprehension") - (description - "This package provides tools for analyzing R expressions or blocks of -code and determining the dependencies between them. It focuses on R scripts, -but can be used on the bodies of functions. There are many facilities -including the ability to summarize or get a high-level view of code, -determining dependencies between variables, code improvement suggestions.") - ;; Any version of the GPL - (license (list license:gpl2+ license:gpl3+)))) - (define-public r-rappdirs (package (name "r-rappdirs") @@ -4163,14 +4266,14 @@ obtain a better initial configuration in non-metric MDS.") (define-public r-reticulate (package (name "r-reticulate") - (version "1.8") + (version "1.10") (source (origin (method url-fetch) (uri (cran-uri "reticulate" version)) (sha256 (base32 - "0zwb4ikf021nw7axdn7qlr6bq4xkph3anfy314idkspy1iil4nmr")))) + "0bz3lxbisjwn6cv23090zivpy0bxcncr82g5qja13l37i8xnvqsq")))) (build-system r-build-system) (inputs `(("python" ,python))) (propagated-inputs @@ -4280,14 +4383,14 @@ and adds the annotation to the plot.") (define-public r-ggpubr (package (name "r-ggpubr") - (version "0.1.7") + (version "0.1.8") (source (origin (method url-fetch) (uri (cran-uri "ggpubr" version)) (sha256 (base32 - "110ny8p41kmbz0a5rl0mv9cqpjkx6yr3ybflp1r0fmcvhwv7cr3i")))) + "0psl2zndm4wk6nnj1nv305islpxfvfgd87gjh2ph8yqn4mxpnfi1")))) (build-system r-build-system) (propagated-inputs `(("r-cowplot" ,r-cowplot) @@ -4296,8 +4399,10 @@ and adds the annotation to the plot.") ("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))) @@ -4424,6 +4529,27 @@ 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") @@ -4495,6 +4621,303 @@ 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") @@ -4688,14 +5111,14 @@ Group (Non-)Overlap considerations.") (define-public r-doby (package (name "r-doby") - (version "4.6-1") + (version "4.6-2") (source (origin (method url-fetch) (uri (cran-uri "doBy" version)) (sha256 (base32 - "1y02awzid23bxz8hx6j8pxd6i7jaq8pdw3k60rag8y6m69incrw5")))) + "02vbv9nfgywg6lsiialkmfnax5z3rkyb9nr8j9l2cp8xi6ml95mb")))) (properties `((upstream-name . "doBy"))) (build-system r-build-system) (propagated-inputs @@ -4988,3 +5411,156 @@ 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.") + (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))) |