diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 613 |
1 files changed, 455 insertions, 158 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index fff71790b6..bc391d9afd 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -72,9 +72,11 @@ #:use-module (gnu packages mpi) #:use-module (gnu packages multiprecision) #:use-module (gnu packages networking) + #:use-module (gnu packages node) #:use-module (gnu packages pcre) #:use-module (gnu packages perl) #:use-module (gnu packages pkg-config) + #:use-module (gnu packages pulseaudio) ;libsndfile #:use-module (gnu packages python) #:use-module (gnu packages python-xyz) #:use-module (gnu packages statistics) @@ -102,6 +104,76 @@ The package provides functions for point generation, arc length estimation, degree elevation and curve fitting.") (license license:gpl2+))) +(define-public r-v8 + (package + (name "r-v8") + (version "3.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "V8" version)) + (sha256 + (base32 + "0xdljralgwyivdhx2a7kqf3yv4ijl4rdrz2p7p59lj2x5d2qyanf")))) + (properties `((upstream-name . "V8"))) + (build-system r-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'find-v8 + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "configure" + (("^PKG_LIBS=.*") + (string-append "PKG_LIBS=" + (assoc-ref inputs "node") + "/lib/libnode.so.64\n"))) + (setenv "INCLUDE_DIR" + (string-append + (assoc-ref inputs "node") + "/include/node")) + (setenv "LIB_DIR" + (string-append + (assoc-ref inputs "node") "/lib")) + #t))))) + (inputs + `(("node" ,libnode))) + (propagated-inputs + `(("r-curl" ,r-curl) + ("r-jsonlite" ,r-jsonlite) + ("r-rcpp" ,r-rcpp))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://jeroen.cran.dev/V8") + (synopsis "Embedded JavaScript and WebAssembly engine for R") + (description + "This package provides an R interface to V8: Google's JavaScript and +WebAssembly engine.") + (license license:expat))) + +(define-public r-dot + (package + (name "r-dot") + (version "0.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "DOT" version)) + (sha256 + (base32 + "0qh5n57cp9c2n5yn59q4wggz82943pwfanp3kx869aba2x3sj30i")))) + (properties `((upstream-name . "DOT"))) + (build-system r-build-system) + (propagated-inputs + `(("r-v8" ,r-v8))) + (home-page "http://haghish.com/dot") + (synopsis "Render and Export DOT Graphs in R") + (description + "This package provides tools to render DOT diagram markup language in R +and also provides the possibility to export the graphs in PostScript and +SVG (Scalable Vector Graphics) formats. In addition, it supports literate +programming packages such as @code{knitr} and @code{rmarkdown}.") + (license license:expat))) + (define-public r-clipr (package (name "r-clipr") @@ -124,13 +196,13 @@ the system clipboards.") (define-public r-ggpmisc (package (name "r-ggpmisc") - (version "0.3.4") + (version "0.3.5") (source (origin (method url-fetch) (uri (cran-uri "ggpmisc" version)) (sha256 (base32 - "0xc1yp0kphipq23ri4ij93garx1x2nrf4i0lhs6m10pp9yz7fbmj")))) + "0ma2d3a3v8n85sghxr9anl6vgbs8gi82i1dllw99n81gsm59wgin")))) (build-system r-build-system) (propagated-inputs `(("r-broom" ,r-broom) @@ -138,19 +210,96 @@ the system clipboards.") ("r-ggplot2" ,r-ggplot2) ("r-gridextra" ,r-gridextra) ("r-lubridate" ,r-lubridate) + ("r-magrittr" ,r-magrittr) ("r-mass" ,r-mass) ("r-plyr" ,r-plyr) ("r-polynom" ,r-polynom) + ("r-rlang" ,r-rlang) + ("r-scales" ,r-scales) ("r-splus2r" ,r-splus2r) + ("r-stringr" ,r-stringr) ("r-tibble" ,r-tibble) ("r-xts" ,r-xts) ("r-zoo" ,r-zoo))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://www.r4photobiology.info/") (synopsis "Miscellaneous Extensions to @code{ggplot2}") (description "This package provides extensions to @code{ggplot2}, respecting the grammar of its graphics paradigm.") (license license:gpl2+))) +(define-public r-gprofiler + (package + (name "r-gprofiler") + (version "0.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "gProfileR" version)) + (sha256 + (base32 + "1h1v0kgpsn04ald2izznh7fr2riwisj5hcgz4k7h3qc931rf0r4k")))) + (properties `((upstream-name . "gProfileR"))) + (build-system r-build-system) + (propagated-inputs + `(("r-plyr" ,r-plyr) + ("r-rcurl" ,r-rcurl))) + (home-page "https://cran.r-project.org/web/packages/gProfileR/") + (synopsis "Interface to the g:Profiler toolkit") + (description + "This package provides tools for functional enrichment analysis, +gene identifier conversion and mapping homologous genes across related +organisms via the @code{g:Profiler} toolkit.") + (license license:gpl2+))) + +(define-public r-gprofiler2 + (package + (name "r-gprofiler2") + (version "0.1.9") + (source + (origin + (method url-fetch) + (uri (cran-uri "gprofiler2" version)) + (sha256 + (base32 + "112hmmvdwg8xz90w1bsbzc55y4xi9jj4dqy0q4bsgp49x58r92rb")))) + (properties `((upstream-name . "gprofiler2"))) + (build-system r-build-system) + (propagated-inputs + `(("r-crosstalk" ,r-crosstalk) + ("r-dplyr" ,r-dplyr) + ("r-ggplot2" ,r-ggplot2) + ("r-gridextra" ,r-gridextra) + ("r-jsonlite" ,r-jsonlite) + ("r-plotly" ,r-plotly) + ("r-rcurl" ,r-rcurl) + ("r-tidyr" ,r-tidyr) + ("r-viridislite" ,r-viridislite))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://cran.r-project.org/web/packages/gprofiler2/") + (synopsis "Interface to the g:Profiler toolset") + (description + "This package provides a toolset for functional enrichment analysis and +visualization, gene/protein/SNP identifier conversion and mapping orthologous +genes across species via @url{https://biit.cs.ut.ee/gprofiler,g:Profiler}. +The main tools are: + +@enumerate +@item @code{g:GOSt}, functional enrichment analysis and visualization of gene + lists; +@item @code{g:Convert}, gene/protein/transcript identifier conversion across + various namespaces; +@item @code{g:Orth}, orthology search across species; +@item @code{g:SNPense}, mapping SNP rs identifiers to chromosome positions, + genes and variant effects. +@end enumerate + +This package is an R interface corresponding to the 2019 update of +@code{g:Profiler} and provides access to versions @code{e94_eg41_p11} and +higher.") + (license license:gpl2+))) + (define-public r-oenb (package (name "r-oenb") @@ -253,14 +402,14 @@ information.") (define-public r-ellipsis (package (name "r-ellipsis") - (version "0.3.0") + (version "0.3.1") (source (origin (method url-fetch) (uri (cran-uri "ellipsis" version)) (sha256 (base32 - "01z9gq311nzwv3a0sa49jhm5ylqd59srip4vjkrf23hzgb5i9y0b")))) + "1nvmkcca57d9067rcggw1gby80ibx5hplk2myz0cs9zwilaib2jg")))) (build-system r-build-system) (propagated-inputs `(("r-rlang" ,r-rlang))) @@ -596,24 +745,24 @@ the embedded @code{RapidXML} C++ library.") (define-public r-modelr (package (name "r-modelr") - (version "0.1.7") + (version "0.1.8") (source (origin (method url-fetch) (uri (cran-uri "modelr" version)) (sha256 (base32 - "1nln33ajad0c917hmal4v6fbw8rncsch9xz5sifqfw6wgqjx9yy6")))) + "1i31nff7bqibk6r4hhd4j1vzwbyaf8493v0bjaagn36njmysfnw2")))) (build-system r-build-system) (propagated-inputs `(("r-broom" ,r-broom) - ("r-dplyr" ,r-dplyr) ("r-magrittr" ,r-magrittr) ("r-purrr" ,r-purrr) ("r-rlang" ,r-rlang) ("r-tibble" ,r-tibble) ("r-tidyr" ,r-tidyr) - ("r-tidyselect" ,r-tidyselect))) + ("r-tidyselect" ,r-tidyselect) + ("r-vctrs" ,r-vctrs))) (home-page "https://github.com/tidyverse/modelr") (synopsis "Helper functions for modelling in pipelines") (description @@ -624,13 +773,13 @@ into a pipeline of data manipulation and visualisation.") (define-public r-httpuv (package (name "r-httpuv") - (version "1.5.2") + (version "1.5.4") (source (origin (method url-fetch) (uri (cran-uri "httpuv" version)) (sha256 (base32 - "13ax0hs2lc39ilznh1zarwqdzahcbhb8adilrfik3xg0fkljpcwk")))) + "066rprqvz9qln6xd85x1yh1wbbmzd157xjl8zq1zbgr8l6347inm")))) (build-system r-build-system) (propagated-inputs `(("r-bh" ,r-bh) @@ -677,13 +826,13 @@ in systems and applications.") (define-public r-servr (package (name "r-servr") - (version "0.16") + (version "0.17") (source (origin (method url-fetch) (uri (cran-uri "servr" version)) (sha256 (base32 - "106skz04iq4dkblr17idxsxfcfqic6rcaz8mahydkwjjppnhp5fc")))) + "0lxkjr7mwdk96cdpx66j92nn4w2vkgn2j2bbg7kd4238jsk9srs7")))) (build-system r-build-system) (propagated-inputs `(("r-httpuv" ,r-httpuv) @@ -1176,14 +1325,14 @@ Bootstrap themes, which are packaged for use with Shiny applications.") (define-public r-d3r (package (name "r-d3r") - (version "0.8.7") + (version "0.9.0") (source (origin (method url-fetch) (uri (cran-uri "d3r" version)) (sha256 (base32 - "0xl3im76lp7pd5lhp8jfyqdm4j4zvjrx5a5fl81xv2cf7x3n4f2a")))) + "0vd1qk8yr18xdfkv5ybhqvf0mmccpi721wqa7c881nzm9nnlzc4y")))) (build-system r-build-system) (arguments `(#:modules ((guix build utils) @@ -1218,6 +1367,7 @@ Bootstrap themes, which are packaged for use with Shiny applications.") (propagated-inputs `(("r-dplyr" ,r-dplyr) ("r-htmltools" ,r-htmltools) + ("r-rlang" ,r-rlang) ("r-tidyr" ,r-tidyr))) (native-inputs `(("uglify-js" ,uglify-js) @@ -1529,17 +1679,19 @@ including functions for geolocation and routing.") (define-public r-haven (package (name "r-haven") - (version "2.2.0") + (version "2.3.1") (source (origin (method url-fetch) (uri (cran-uri "haven" version)) (sha256 (base32 - "0g9d6mxqmrw2zdms78jpx2sx73pczlyy771v1h5hmxqz9sqyk7hr")))) + "03cypgqhdkrfbfpl1yx2wb7flczrbak1w654wkicmd5ajwr9zvkf")))) (build-system r-build-system) (inputs `(("zlib" ,zlib))) + (native-inputs + `(("r-knitr" ,r-knitr))) (propagated-inputs `(("r-forcats" ,r-forcats) ("r-hms" ,r-hms) @@ -1547,7 +1699,8 @@ including functions for geolocation and routing.") ("r-rlang" ,r-rlang) ("r-readr" ,r-readr) ("r-tibble" ,r-tibble) - ("r-tidyselect" ,r-tidyselect))) + ("r-tidyselect" ,r-tidyselect) + ("r-vctrs" ,r-vctrs))) (home-page "https://haven.tidyverse.org") (synopsis "Import and Export 'SPSS', 'Stata' and 'SAS' Files") (description @@ -1577,14 +1730,14 @@ component analysis (with robust methods, and parallelized functions).") (define-public r-ape (package (name "r-ape") - (version "5.3") + (version "5.4") (source (origin (method url-fetch) (uri (cran-uri "ape" version)) (sha256 (base32 - "08wbk1kxhs32bmmvqlqanbdg1w235amd35k8m00fngsj9h9xzc08")))) + "0f74x9vx9sxpns2hlq4w2x80cd2gw42isfgncvs9pqbjf4hiyqnr")))) (build-system r-build-system) (propagated-inputs `(("r-lattice" ,r-lattice) @@ -1653,14 +1806,14 @@ colors are provided.") (define-public r-glue (package (name "r-glue") - (version "1.4.0") + (version "1.4.1") (source (origin (method url-fetch) (uri (cran-uri "glue" version)) (sha256 (base32 - "1hb9j2519jv9zgkgjb25hnqi22i7zxnaksqd16m4nxa1f6gl0v7a")))) + "1j1va4vi3g9sl0cyjdwxvh5lvh10x8k9qvnsr9zyxddcbk9qgdpq")))) (build-system r-build-system) ;; knitr depends on glue, so we can't add knitr here to build the ;; vignettes. @@ -1799,17 +1952,19 @@ is configured appropriately so R can use them.") (define-public r-pkgload (package (name "r-pkgload") - (version "1.0.2") + (version "1.1.0") (source (origin (method url-fetch) (uri (cran-uri "pkgload" version)) (sha256 (base32 - "0z7jvharafahi2gv5547mk1n499isjzw06kfwymmxc0gd575d1ii")))) + "03bv8xq4s6s7m34y1kjs99jzlb95vwrfi76mbnhmzcx2pc6ld78q")))) (build-system r-build-system) (propagated-inputs - `(("r-desc" ,r-desc) + `(("r-cli" ,r-cli) + ("r-crayon" ,r-crayon) + ("r-desc" ,r-desc) ("r-pkgbuild" ,r-pkgbuild) ("r-rlang" ,r-rlang) ("r-rprojroot" ,r-rprojroot) @@ -1916,13 +2071,13 @@ is provided.") (define-public r-calibrate (package (name "r-calibrate") - (version "1.7.5") + (version "1.7.6") (source (origin (method url-fetch) (uri (cran-uri "calibrate" version)) (sha256 - (base32 "1s423nr176l2sc66wp7hzgqkv7c2bq8d2bjrrvrrm5qa9y3zdx1k")))) + (base32 "0h91mxf4fy3xk4mavf6cdllglyq5fra8zpz7yvc63n5jigpy2lhd")))) (build-system r-build-system) (propagated-inputs `(("r-mass" ,r-mass))) @@ -1955,15 +2110,17 @@ ellipses, circles, cylinders, arrows, ...") (define-public r-globaloptions (package (name "r-globaloptions") - (version "0.1.1") + (version "0.1.2") (source (origin (method url-fetch) (uri (cran-uri "GlobalOptions" version)) (sha256 - (base32 "0x89hfz80avq4zcskxl71i4zi0mgniqqxfrvz050aa2189wfyja2")))) + (base32 "0gkm77w6db9ajyncy1xdcivplap06a51zi99m009kylccschd2a7")))) (properties `((upstream-name . "GlobalOptions"))) (build-system r-build-system) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/jokergoo/GlobalOptions") (synopsis "Generate functions to get or set global options") (description @@ -2080,21 +2237,24 @@ compare different dendrograms to one another.") (define-public r-getoptlong (package (name "r-getoptlong") - (version "0.1.8") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "GetoptLong" version)) (sha256 (base32 - "1l8xkvyl152bsyvxazsvx2sm1vkygn75x0lsg3sbg7xp6drdn3kc")))) + "1fswgy5j4xaipqs7nk7nzrl66vrchhxrk0w7hcsbyij3sxgn3z9j")))) (properties `((upstream-name . "GetoptLong"))) (build-system r-build-system) (inputs `(("perl" ,perl))) (propagated-inputs - `(("r-globaloptions" ,r-globaloptions) + `(("r-crayon" ,r-crayon) + ("r-globaloptions" ,r-globaloptions) ("r-rjson" ,r-rjson))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/jokergoo/GetoptLong") (synopsis "Parsing command-line arguments and variable interpolation") (description @@ -2240,14 +2400,14 @@ package also provides a C++ API, that works with or without Rcpp.") (define-public r-ggally (package (name "r-ggally") - (version "1.5.0") + (version "2.0.0") (source (origin (method url-fetch) (uri (cran-uri "GGally" version)) (sha256 (base32 - "082s321zspg5al6acigwrhg4fsrmkkk5caabg662qbcy8v6n34h6")))) + "1gkmpzh1yvwvypkw0nwqv3gsf6za3220wig3rfv8g23kss60rl1s")))) (properties `((upstream-name . "GGally"))) (build-system r-build-system) (inputs @@ -2255,11 +2415,13 @@ package also provides a C++ API, that works with or without Rcpp.") (propagated-inputs `(("r-ggplot2" ,r-ggplot2) ("r-gtable" ,r-gtable) + ("r-lifecycle" ,r-lifecycle) ("r-plyr" ,r-plyr) ("r-progress" ,r-progress) ("r-rcolorbrewer" ,r-rcolorbrewer) ("r-reshape" ,r-reshape) - ("r-rlang" ,r-rlang))) + ("r-rlang" ,r-rlang) + ("r-scales" ,r-scales))) (home-page "https://ggobi.github.io/ggally") (synopsis "Extension to ggplot2") (description @@ -2294,13 +2456,13 @@ most popular ones.") (define-public r-sp (package (name "r-sp") - (version "1.4-1") + (version "1.4-2") (source (origin (method url-fetch) (uri (cran-uri "sp" version)) (sha256 - (base32 "0fbh865r4py89g6ln8bslig2vbxxwa642p5k5g02rskyhajg35lg")))) + (base32 "02jxsd30apzjbdbssirysq70d4svdwzn931jhxr0ladl72g9bqvk")))) (build-system r-build-system) (propagated-inputs `(("r-lattice" ,r-lattice))) @@ -2653,19 +2815,20 @@ functions from LINPACK.") (define-public r-fitdistrplus (package (name "r-fitdistrplus") - (version "1.0-14") + (version "1.1-1") (source (origin (method url-fetch) (uri (cran-uri "fitdistrplus" version)) (sha256 (base32 - "10q08wsv8v3w7797jdvvv60bgrf1bi6438wf0jcqv81ays82a245")))) + "1rnfnwmxa495fql7q0h9018cnwygwhj8gfh6ryz1vbf474570vjl")))) (build-system r-build-system) (propagated-inputs `(("r-mass" ,r-mass) - ("r-npsurv" ,r-npsurv) ("r-survival" ,r-survival))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "http://riskassessment.r-forge.r-project.org") (synopsis "Fitting a parametric distribution from data") (description @@ -2794,14 +2957,14 @@ contexts.") (define-public r-squarem (package (name "r-squarem") - (version "2020.2") + (version "2020.3") (source (origin (method url-fetch) (uri (cran-uri "SQUAREM" version)) (sha256 (base32 - "1j6sa93xjvynnzx9jx79a3fysbykmbqyknknsqif5bcha6xp6cvf")))) + "17l05i87vwvcsk79fbg52zrx04zdlwiiyl3ga8qafs7mqx0j976q")))) (properties `((upstream-name . "SQUAREM"))) (build-system r-build-system) (home-page "https://coah.jhu.edu/people/Faculty_personal_Pages/Varadhan.html") @@ -3448,14 +3611,14 @@ Laplace approximation and adaptive Gauss-Hermite quadrature.") (define-public r-jomo (package (name "r-jomo") - (version "2.6-10") + (version "2.7-1") (source (origin (method url-fetch) (uri (cran-uri "jomo" version)) (sha256 (base32 - "1k9l4290g350zbw1pjs871q9bxj3j2h1dilxpp06v4wy4n7d8qs0")))) + "0cdy9m4ylarkk9d0v1s61k2d877l4bbxly8a4jwhfy43fdvskz1w")))) (build-system r-build-system) (propagated-inputs `(("r-lme4" ,r-lme4) @@ -3521,14 +3684,14 @@ analysis of multiply imputed data sets.") (define-public r-mice (package (name "r-mice") - (version "3.8.0") + (version "3.9.0") (source (origin (method url-fetch) (uri (cran-uri "mice" version)) (sha256 (base32 - "1ibybvigqkkla4xwhqs2w4m6c68alfcdsljx99nn4p92rzb1ig04")))) + "1wycbc2iqp68gfzvqx1gsn5n1k1h4bg79dy8m5msqf226hy83ncn")))) (build-system r-build-system) (propagated-inputs `(("r-broom" ,r-broom) @@ -4168,13 +4331,13 @@ iVAT).") (define-public r-xfun (package (name "r-xfun") - (version "0.13") + (version "0.14") (source (origin (method url-fetch) (uri (cran-uri "xfun" version)) (sha256 - (base32 "03iyqgx9mmdbd3qih70qzijjqcdg7k7ps5r1y6q8praanx9qvnm3")))) + (base32 "183f6d7lr116f90j37a8hfr6ni1x9xkqj79s8lnky1jwr6zj3ha9")))) (build-system r-build-system) ;; knitr itself depends on xfun #; @@ -4231,14 +4394,14 @@ to variables on the left-hand side of the assignment.") (define-public r-vctrs (package (name "r-vctrs") - (version "0.3.0") + (version "0.3.1") (source (origin (method url-fetch) (uri (cran-uri "vctrs" version)) (sha256 (base32 - "0ay1fk05mk6cnpfbzqwx6pjxmjk3ipx5xx6k0sbh81r5bqj17vpn")))) + "025si8gqwsj79lna3s0hdzxmymjyzbjq3ddan7n6chah6n3kbrhp")))) (build-system r-build-system) (propagated-inputs `(("r-digest" ,r-digest) @@ -4316,14 +4479,14 @@ terminals.") (define-public r-tinytex (package (name "r-tinytex") - (version "0.22") + (version "0.23") (source (origin (method url-fetch) (uri (cran-uri "tinytex" version)) (sha256 (base32 - "0s9f62v3ps5f8903ar6kxlf1z3b4v78vlw1nb05bq55dgj8brg3b")))) + "084jd1m2i3zyxxlls7skq3jxv3b5cgps3yk60q1yzyy9sxslab7m")))) (build-system r-build-system) (propagated-inputs `(("r-xfun" ,r-xfun))) @@ -5519,14 +5682,14 @@ evaluated by the @dfn{Akaike Information Criterion} (AIC).") (define-public r-arules (package (name "r-arules") - (version "1.6-5") + (version "1.6-6") (source (origin (method url-fetch) (uri (cran-uri "arules" version)) (sha256 (base32 - "0bcvfn8lvcv74vv9z3kgg7yq5hm7wjqhmzadi55cbm8zxd76g84v")))) + "1pk3jjizn2m5rwi7qkdkbq9f07acgpy0qdzzqmx0agg47cwahlkm")))) (build-system r-build-system) (propagated-inputs `(("r-matrix" ,r-matrix))) @@ -5698,14 +5861,14 @@ simple method for converting between file types.") (define-public r-maptools (package (name "r-maptools") - (version "0.9-9") + (version "1.0-1") (source (origin (method url-fetch) (uri (cran-uri "maptools" version)) (sha256 (base32 - "0v4llkxk8qs61vq4ykvaim4k23aagdaz0p62ns7zfq02sln3pfk9")))) + "0fs1y3cbymcq4f76wd27h5a7ihdmxii3ca8x29x32xgxhmasni4l")))) (build-system r-build-system) (propagated-inputs `(("r-foreign" ,r-foreign) @@ -5726,19 +5889,21 @@ exchanging spatial objects with other R packages.") (define-public r-later (package (name "r-later") - (version "1.0.0") + (version "1.1.0.1") (source (origin (method url-fetch) (uri (cran-uri "later" version)) (sha256 (base32 - "11xjavj7siz0xv2ffq1ld4bwl35jyrcfpvvs4p3ilpifxx49hyr7")))) + "1k9n2j7zxw9gfclnx8zfqp6w64c5d6apn7g02yhkajkpmszagfki")))) (build-system r-build-system) (propagated-inputs `(("r-bh" ,r-bh) ("r-rcpp" ,r-rcpp) ("r-rlang" ,r-rlang))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/r-lib/later") (synopsis "Utilities for delaying function execution") (description @@ -5749,14 +5914,14 @@ time after the current time, after the R execution stack has emptied.") (define-public r-promises (package (name "r-promises") - (version "1.1.0") + (version "1.1.1") (source (origin (method url-fetch) (uri (cran-uri "promises" version)) (sha256 (base32 - "01l0ydjvvy6afcg5d6pzvk1ikd3djq8n2flv8c831ksn68z0zsn8")))) + "002qkhcn3ri6a3w5fizjvdvrjgvqiw8i7rl9jglcnqik5kmwc61p")))) (build-system r-build-system) (propagated-inputs `(("r-later" ,r-later) @@ -5764,6 +5929,8 @@ time after the current time, after the R execution stack has emptied.") ("r-r6" ,r-r6) ("r-rcpp" ,r-rcpp) ("r-rlang" ,r-rlang))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://rstudio.github.io/promises") (synopsis "Abstractions for promise-based asynchronous programming") (description @@ -5938,14 +6105,14 @@ obtain a better initial configuration in non-metric MDS.") (define-public r-reticulate (package (name "r-reticulate") - (version "1.15") + (version "1.16") (source (origin (method url-fetch) (uri (cran-uri "reticulate" version)) (sha256 (base32 - "03dmnx9jhxx6vfbv2i5n6sln38kb9zkshz982pg3l9i4jjf3xns7")))) + "0ddx3xrlw55d8d3w7pxap618w2c5pd1n2jw4xsa185s8mf1zifkl")))) (build-system r-build-system) (inputs `(("python" ,python))) (propagated-inputs @@ -6135,14 +6302,14 @@ publication-ready plots.") (define-public r-ellipse (package (name "r-ellipse") - (version "0.4.1") + (version "0.4.2") (source (origin (method url-fetch) (uri (cran-uri "ellipse" version)) (sha256 (base32 - "0g82vc51m3c1k0hnpp2zla6amxxgk2mmkl8ssnsc49jv3599r6hs")))) + "1wm5v7zdv2drgdba7z96jwsx74mqhlq80qgrvdb4vb5r02dcw68p")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/ellipse/") (synopsis "Functions for drawing ellipses and ellipse-like confidence regions") @@ -6437,14 +6604,14 @@ references and Rd files.") (define-public r-officer (package (name "r-officer") - (version "0.3.9") + (version "0.3.11") (source (origin (method url-fetch) (uri (cran-uri "officer" version)) (sha256 (base32 - "0kp8rmab917zimnyc0rz37czf5f044z9naiyq0yxw68i990ikxf7")))) + "0nwasra2kb5wplcim7n57kynwhyg4vsk3fz42mbpm0hig1lzl9pp")))) (build-system r-build-system) (propagated-inputs `(("r-magrittr" ,r-magrittr) @@ -6554,14 +6721,14 @@ and tests them.") (define-public r-overlap (package (name "r-overlap") - (version "0.3.2") + (version "0.3.3") (source (origin (method url-fetch) (uri (cran-uri "overlap" version)) (sha256 (base32 - "1j3m6ir1chdz0si2fhcw6gs7c9h09bv0chz18rpzxsywww6d4rzy")))) + "17cnr4qin1qy0df4k491267acna12gpbbps6w3gi8nccqxfrb1pd")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/overlap/") (synopsis "Estimates of coefficient of overlapping for animal activity patterns") @@ -6621,14 +6788,14 @@ other add-on packages.") (define-public r-insight (package (name "r-insight") - (version "0.8.3") + (version "0.8.5") (source (origin (method url-fetch) (uri (cran-uri "insight" version)) (sha256 (base32 - "0lm5a4r368mq1pwmxjk2xnz25lb9j4v7mdkl1bahk2alklxgb8yj")))) + "0ggczjd112kclknyxxqvjkzwzazfhjwglchafzamk4zb08ww7y7k")))) (build-system r-build-system) (native-inputs `(("r-knitr" ,r-knitr))) @@ -6649,14 +6816,14 @@ information are missing.") (define-public r-sjlabelled (package (name "r-sjlabelled") - (version "1.1.4") + (version "1.1.5") (source (origin (method url-fetch) (uri (cran-uri "sjlabelled" version)) (sha256 (base32 - "00dnrvwf7zbaq07hkh4rx24pvi5bwkl4npf6ycg101s63633dq5m")))) + "0grskmd7wrw31lkf85z6xz0bv246m6grvqkijvqi4q8zkl6p5vb3")))) (build-system r-build-system) (propagated-inputs `(("r-insight" ,r-insight))) @@ -6675,14 +6842,14 @@ vice versa), or to deal with multiple declared missing values.") (define-public r-sjmisc (package (name "r-sjmisc") - (version "2.8.4") + (version "2.8.5") (source (origin (method url-fetch) (uri (cran-uri "sjmisc" version)) (sha256 (base32 - "1ad7ca71w0v9ja4wb47aygczc987zz1lnjljhh2n497nzrpzzv64")))) + "0xl0s56d13bia89ai619rcr0fzbvc2k8f7hjxik4qp0g4v87zzlk")))) (build-system r-build-system) (propagated-inputs `(("r-dplyr" ,r-dplyr) @@ -6755,14 +6922,14 @@ functions.") (define-public r-flextable (package (name "r-flextable") - (version "0.5.9") + (version "0.5.10") (source (origin (method url-fetch) (uri (cran-uri "flextable" version)) (sha256 (base32 - "1rkz0nhwjy1l8sb0kmna5v492n2ydnk7gydswnmf88r8vfyjczhw")))) + "1j7yvjiavar21ywck6nyz0p6bd66fnj99bq8lljdz4rrl3314yb8")))) (build-system r-build-system) (propagated-inputs `(("r-base64enc" ,r-base64enc) @@ -6773,6 +6940,7 @@ functions.") ("r-officer" ,r-officer) ("r-rlang" ,r-rlang) ("r-rmarkdown" ,r-rmarkdown) + ("r-uuid" ,r-uuid) ("r-xml2" ,r-xml2))) (home-page "https://davidgohel.github.io/flextable") (synopsis "Functions for tabular reporting") @@ -6998,26 +7166,26 @@ the work.") (define-public r-doby (package (name "r-doby") - (version "4.6.5") + (version "4.6.6") (source (origin (method url-fetch) (uri (cran-uri "doBy" version)) (sha256 (base32 - "1ckazh701b4ilg8bj17ji903538jmb49d997gm49ah5j5jc1x0g7")))) + "0wz1vmsf1545r1m42q88s675ncwvm8figjn7kzbngjn9aqck9qbq")))) (properties `((upstream-name . "doBy"))) (build-system r-build-system) (propagated-inputs `(("r-broom" ,r-broom) ("r-deriv" ,r-deriv) - ("r-dplyr" ,r-dplyr) ("r-magrittr" ,r-magrittr) ("r-mass" ,r-mass) ("r-matrix" ,r-matrix) - ("r-plyr" ,r-plyr) ("r-pbkrtest" ,r-pbkrtest) ("r-tibble" ,r-tibble))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "http://people.math.aau.dk/~sorenh/software/doBy/") (synopsis "Groupwise statistics, LSmeans, linear contrasts, and utilities") (description @@ -7460,13 +7628,13 @@ while providing the intuitive capabilities of @code{r-ggplot2}.") (define-public r-mosaicdata (package (name "r-mosaicdata") - (version "0.17.0") + (version "0.18.0") (source (origin (method url-fetch) (uri (cran-uri "mosaicData" version)) (sha256 - (base32 "04z0mdm52mykqsxsinhmsihn181zf6cw321gayk2rjp7lj7mwdq9")))) + (base32 "0cx5dg26ha7nzkdyghkbbd6ikncj60qv1538az77lfgn2jylvkbz")))) (properties `((upstream-name . "mosaicData"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/mosaicData/") @@ -8490,14 +8658,14 @@ Hothorn, Westfall, 2010, CRC Press).") (define-public r-emmeans (package (name "r-emmeans") - (version "1.4.6") + (version "1.4.7") (source (origin (method url-fetch) (uri (cran-uri "emmeans" version)) (sha256 (base32 - "0mxk7ghlv4r6sna4897q1la2xgyn1dw3r9srhm9x4h5l4701avfa")))) + "0jh7l1rzsb2ihbnh4r4388kwm629z17rcapvdws1hnkklhr8j74k")))) (build-system r-build-system) (propagated-inputs `(("r-estimability" ,r-estimability) @@ -8588,18 +8756,20 @@ correlation, censored, ordered and multivariate problems.") (define-public r-bayesplot (package (name "r-bayesplot") - (version "1.7.1") + (version "1.7.2") (source (origin (method url-fetch) (uri (cran-uri "bayesplot" version)) (sha256 (base32 - "0sq0ajnm96hmlqf1cv5n2gshh3qdij4n1zbm7qrniz2q6b5aj342")))) + "0aqy4bfjq1fmds0vpacsmqih528cp8wk4v4w0balzkph6zqzpwcl")))) (build-system r-build-system) (inputs `(("pandoc" ,ghc-pandoc) ("pandoc-citeproc" ,ghc-pandoc-citeproc))) + (native-inputs + `(("r-knitr" ,r-knitr))) (propagated-inputs `(("r-dplyr" ,r-dplyr) ("r-ggplot2" ,r-ggplot2) @@ -8809,14 +8979,14 @@ results using @code{ggplot2}.") (define-public r-effectsize (package (name "r-effectsize") - (version "0.3.0") + (version "0.3.1") (source (origin (method url-fetch) (uri (cran-uri "effectsize" version)) (sha256 (base32 - "0kijp4wamkidaxysc11dd4vhvnm4wnbi87871wcbwn27k5b6i5dg")))) + "1n5b5434sd8f1v95bfjwg92v879rkaj8zpm6ldnrg0kgfb0gy6q4")))) (properties `((upstream-name . "effectsize"))) (build-system r-build-system) (propagated-inputs @@ -8836,13 +9006,13 @@ conversion of indices such as Cohen's d, r, odds, etc.") (define-public r-sjplot (package (name "r-sjplot") - (version "2.8.3") + (version "2.8.4") (source (origin (method url-fetch) (uri (cran-uri "sjPlot" version)) (sha256 - (base32 "0ip1rkjlhyf3axlc8qqss1qq1f0xrda890c1jmcbhm98wwjw264f")))) + (base32 "0b7k0mshkk8k26w11xbxkb5v0klhq279zn2xdz83cn8k791xkqyd")))) (properties `((upstream-name . "sjPlot"))) (build-system r-build-system) (propagated-inputs @@ -10680,14 +10850,14 @@ the combination of non-negative and non-positive constraints.") (define-public r-iso (package (name "r-iso") - (version "0.0-18") + (version "0.0-18.1") (source (origin (method url-fetch) (uri (cran-uri "Iso" version)) (sha256 (base32 - "014mm5b1f7i6nwlz3kyg1biph0y542kcx5bd13p68cv5a928qzid")))) + "0vy6jdyvp751430sf2f690yhasjr70cpk3p3lnaaxjq3fs5gg99g")))) (properties `((upstream-name . "Iso"))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) @@ -10877,14 +11047,14 @@ preparing, executing, and processing HTTP requests.") (define-public r-bigrquery (package (name "r-bigrquery") - (version "1.3.0") + (version "1.3.1") (source (origin (method url-fetch) (uri (cran-uri "bigrquery" version)) (sha256 (base32 - "0j8asipnb4fg4kk3apy37ywqq78ncmqh9wq015xpww2zb9shnbvf")))) + "0mq03sqv5lkyn3dlxvyd6lqqwnryfdaqh05pjvngzp194fxmd9cy")))) (build-system r-build-system) (propagated-inputs `(("r-assertthat" ,r-assertthat) @@ -10910,14 +11080,14 @@ preparing, executing, and processing HTTP requests.") (define-public r-gmp (package (name "r-gmp") - (version "0.5-13.6") + (version "0.6-0") (source (origin (method url-fetch) (uri (cran-uri "gmp" version)) (sha256 (base32 - "0j2sz2nw41y9306rl1b8hbn0spz7453z5iawcq0bvslyrhc1d9ir")))) + "1c9vpr6j6h5f6dm9l535nscl66rvr8sba5az2kswjhmzwb9xpjxc")))) (build-system r-build-system) (arguments '(#:phases @@ -11672,13 +11842,13 @@ But it can also be used to do data analysis for small scale data sets.") (define-public r-cmprsk (package (name "r-cmprsk") - (version "2.2-9") + (version "2.2-10") (source (origin (method url-fetch) (uri (cran-uri "cmprsk" version)) (sha256 - (base32 "0xhgfg5b4i9skkaxp7gzkafgg5bqs5q1rp4hpw2jjmykg2nifn99")))) + (base32 "1xnx2zanw548prxsw2zw5cddkkg6kj97jgyzw67achq5mnsvfbg8")))) (build-system r-build-system) (propagated-inputs `(("r-survival" ,r-survival))) @@ -12574,14 +12744,14 @@ probabilities from a standard bivariate normal CDF.") (define-public r-lavaan (package (name "r-lavaan") - (version "0.6-5") + (version "0.6-6") (source (origin (method url-fetch) (uri (cran-uri "lavaan" version)) (sha256 (base32 - "04kvsh2m6mnzlhv83phr3hjzy4sx1ck6f7dgsm7xb8cs84dnxszy")))) + "0sfv58r2kxinax62bx6j3kkfx07qm16ddwf5qz392q33h9zs009h")))) (build-system r-build-system) (propagated-inputs `(("r-mass" ,r-mass) @@ -12950,14 +13120,14 @@ return the match results in tidy data frames.") (define-public r-picante (package (name "r-picante") - (version "1.8.1") + (version "1.8.2") (source (origin (method url-fetch) (uri (cran-uri "picante" version)) (sha256 (base32 - "1b16zm8zjjsl181b8krkdcrbcw347kf772c4w7y5332qmfi7jhz0")))) + "19savjzj44b7ifdxcp02ynj22z4n4ikq2aipc74ljzy3yykmqmjn")))) (build-system r-build-system) (propagated-inputs `(("r-ape" ,r-ape) @@ -13005,14 +13175,14 @@ can be used with function approximation, eligibility traces (Singh & Sutton, (define-public r-lemon (package (name "r-lemon") - (version "0.4.4") + (version "0.4.5") (source (origin (method url-fetch) (uri (cran-uri "lemon" version)) (sha256 (base32 - "0m9hqwi709j9iwsxn8jh63741jiyr7ppwgqaw2zkv285p3m5wvd5")))) + "1y3ljidhqdakxlya2npj2w0az820g8kw6gl1cfm4f0cxvzgd1ly4")))) (build-system r-build-system) (propagated-inputs `(("r-ggplot2" ,r-ggplot2) @@ -13023,6 +13193,8 @@ can be used with function approximation, eligibility traces (Singh & Sutton, ("r-plyr" ,r-plyr) ("r-rlang" ,r-rlang) ("r-scales" ,r-scales))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/stefanedwards/lemon") (synopsis "Freshen up your ggplot2 plots") (description @@ -13274,14 +13446,14 @@ utilities for sequence data management under the ACNUC system.") (define-public r-units (package (name "r-units") - (version "0.6-6") + (version "0.6-7") (source (origin (method url-fetch) (uri (cran-uri "units" version)) (sha256 (base32 - "11x6xz1fbml28xmrhgn4sii9vfyj3gyfc1dfxahdg9cszdmcgdnh")))) + "1rdpbkiqcabz00fqzzs98v89v4cgvcd4pb00pwxzkq6vmwmscwrz")))) (build-system r-build-system) (inputs `(("udunits" ,udunits))) @@ -13406,14 +13578,14 @@ tessellation.") (define-public r-sf (package (name "r-sf") - (version "0.9-3") + (version "0.9-4") (source (origin (method url-fetch) (uri (cran-uri "sf" version)) (sha256 (base32 - "0qh9jxj88rhkwcd95g0l57cdrz5qqjw1b9yysz1hp9cp99485hcx")))) + "1xgmnz01pxvpg2ins1h65mlcrafqihlljcjlag8spq9ii7d5i7mx")))) (build-system r-build-system) (inputs `(("gdal" ,gdal) @@ -13623,13 +13795,13 @@ either PDF/EPS files.") (define-public r-polspline (package (name "r-polspline") - (version "1.1.18") + (version "1.1.19") (source (origin (method url-fetch) (uri (cran-uri "polspline" version)) (sha256 - (base32 "00h1xg89wncfj2nk68zv7vphfcc68s7k0l5s9511bzxz8khhw9fz")))) + (base32 "0rhzf735hmbqfn2xbgcln4sqx7m9far72g5gq9mghgkw016kqglm")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) (home-page "https://cran.r-project.org/web/packages/polspline/") @@ -13643,20 +13815,23 @@ lspec, polyclass, and polymars.") (define-public r-rms (package (name "r-rms") - (version "5.1-4") + (version "6.0-0") (source (origin (method url-fetch) (uri (cran-uri "rms" version)) (sha256 - (base32 "19knh1sw0icw6jh9wfb2hq5jf49i2qfvp9myvqm5paa495689x9q")))) + (base32 "0m88m63d19qz03x8v56h4rrblln3d2943spi1v4wxxnbcdk22np9")))) (build-system r-build-system) (propagated-inputs - `(("r-ggplot2" ,r-ggplot2) + `(("r-cluster" ,r-cluster) + ("r-digest" ,r-digest) + ("r-ggplot2" ,r-ggplot2) ("r-hmisc" ,r-hmisc) ("r-htmltable" ,r-htmltable) ("r-htmltools" ,r-htmltools) ("r-lattice" ,r-lattice) + ("r-mass" ,r-mass) ("r-multcomp" ,r-multcomp) ("r-nlme" ,r-nlme) ("r-polspline" ,r-polspline) @@ -13878,13 +14053,13 @@ SELECT or UPDATE queries to an end-point.") (define-public r-bookdown (package (name "r-bookdown") - (version "0.18") + (version "0.19") (source (origin (method url-fetch) (uri (cran-uri "bookdown" version)) (sha256 (base32 - "1my6g16phx21v5cvfqcnjibh3zcv02xkix347aafd6a7r3hnxpq5")))) + "137l0cyzw9ij2l3zyk3mm1k2db9vhbax6c9y4rydvh4i9gka5vlq")))) (build-system r-build-system) (propagated-inputs `(("r-htmltools" ,r-htmltools) @@ -14272,20 +14447,22 @@ the XKCD web comic.") (define-public r-msigdbr (package (name "r-msigdbr") - (version "7.0.1") + (version "7.1.1") (source (origin (method url-fetch) (uri (cran-uri "msigdbr" version)) (sha256 (base32 - "19p8z617m3my8la7n1qgb1s2msf940r372im3q30qkbcx3qxg3sd")))) + "0jvi49qa7616s58p0rx66pcw7h12rc8kgcg9225jk7pc3934hnzh")))) (build-system r-build-system) (propagated-inputs `(("r-dplyr" ,r-dplyr) ("r-magrittr" ,r-magrittr) ("r-rlang" ,r-rlang) ("r-tibble" ,r-tibble))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/igordot/msigdbr") (synopsis "MSigDB gene sets for multiple organisms") (description @@ -14512,14 +14689,14 @@ that fills this gap.") (define-public r-europepmc (package (name "r-europepmc") - (version "0.3") + (version "0.4") (source (origin (method url-fetch) (uri (cran-uri "europepmc" version)) (sha256 (base32 - "1ngqs1sqzkbwv98dd5z4cxj8bnz41wyd0g060a2vpqi3s99s4i2h")))) + "174nnyc2mbgqxb5kgqabn1vf71c2mps7ig2bclq4is0f7nb64pym")))) (build-system r-build-system) (propagated-inputs `(("r-dplyr" ,r-dplyr) @@ -14528,8 +14705,13 @@ that fills this gap.") ("r-plyr" ,r-plyr) ("r-progress" ,r-progress) ("r-purrr" ,r-purrr) + ("r-rlang" ,r-rlang) + ("r-tibble" ,r-tibble) + ("r-tidyr" ,r-tidyr) ("r-urltools" ,r-urltools) ("r-xml2" ,r-xml2))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/ropensci/europepmc/") (synopsis "R Interface to the Europe PubMed Central RESTful Web Service") (description @@ -14547,14 +14729,14 @@ databases, including ENA, PDB or ChEMBL are also accessible.") (define-public r-ggraph (package (name "r-ggraph") - (version "2.0.2") + (version "2.0.3") (source (origin (method url-fetch) (uri (cran-uri "ggraph" version)) (sha256 (base32 - "1ckq82hg52vr2wydkqv2wrppgjyvddd6bwqzrngqlm7j71xapjl0")))) + "1pz06j0za4p6dc3fqjzcw8bpym70bmnfcvpv1q34r74rnwzjdyvq")))) (build-system r-build-system) (propagated-inputs `(("r-digest" ,r-digest) @@ -15806,14 +15988,14 @@ path of values for the regularization parameter.") (define-public r-rhpcblasctl (package (name "r-rhpcblasctl") - (version "0.20-17") + (version "0.20-137") (source (origin (method url-fetch) (uri (cran-uri "RhpcBLASctl" version)) (sha256 (base32 - "0iwc06blr5sx7rylwczi2jrha8sk8qs0jklflwpidl0zj1jxdggp")))) + "0vv144sgjhf7fazk633i16fc06g9k43syyxj1g34pi9gsgdcn0nv")))) (properties `((upstream-name . "RhpcBLASctl"))) (build-system r-build-system) (home-page "https://prs.ism.ac.jp/~nakama/Rhpc/") @@ -16077,14 +16259,14 @@ both R code and compiled C/C++/FORTRAN code.") (define-public r-systemfonts (package (name "r-systemfonts") - (version "0.2.1") + (version "0.2.3") (source (origin (method url-fetch) (uri (cran-uri "systemfonts" version)) (sha256 (base32 - "0dna00xai0pw76b4830yy4r5j1hq7f7kla67v0iz39cjm4rq4ygq")))) + "0wf62mfam5zlrck0wrdbyi4hi7pn5j0739rihgp8sj2cjypm2lnb")))) (properties `((upstream-name . "systemfonts"))) (build-system r-build-system) (inputs @@ -16223,14 +16405,14 @@ in pipelines.") (define-public r-parameters (package (name "r-parameters") - (version "0.6.1") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "parameters" version)) (sha256 (base32 - "0mylxkf1y6mk4kf6c57x102sf4c800pfasjcfbf1hnsh6ya0m6dy")))) + "1cmb2hc6f4qdx9aj586zhllckzs6s5sznbqrywvgmhp6a2saaqax")))) (properties `((upstream-name . "parameters"))) (build-system r-build-system) (propagated-inputs @@ -16252,13 +16434,13 @@ effect size.") (define-public r-rgdal (package (name "r-rgdal") - (version "1.4-8") + (version "1.5-10") (source (origin (method url-fetch) (uri (cran-uri "rgdal" version)) (sha256 - (base32 "1jd691amf3ghznq5im15gvhl6v6k25klpl75m4ngrqf9xlxaa3as")))) + (base32 "02z7rhpizzmymiqpi90nm15bjdz0411bqlavlk0lhwxb42ilhif6")))) (properties `((upstream-name . "rgdal"))) (build-system r-build-system) (inputs @@ -16268,7 +16450,8 @@ effect size.") (propagated-inputs `(("r-sp" ,r-sp))) (native-inputs - `(("pkg-config" ,pkg-config))) + `(("pkg-config" ,pkg-config) + ("r-knitr" ,r-knitr))) (home-page "http://rgdal.r-forge.r-project.org") (synopsis "Bindings for the Geospatial Data Abstraction Library") (description @@ -16759,14 +16942,14 @@ simulation.") (define-public r-abcrlda (package (name "r-abcrlda") - (version "1.0.2") + (version "1.0.3") (source (origin (method url-fetch) (uri (cran-uri "abcrlda" version)) (sha256 (base32 - "0zjdrbg3zx0znqnh0dvmifs9c12b8vjhbaf3nbwab9xh25nsmg75")))) + "04pcdnk2szfpc2ylcw5ds7y895ivy03bycal03kxw7cwylzxasks")))) (properties `((upstream-name . "abcrlda"))) (build-system r-build-system) (home-page "https://ieeexplore.ieee.org/document/8720003/") @@ -16895,14 +17078,14 @@ into R, in order to support other packages.") (define-public r-showtextdb (package (name "r-showtextdb") - (version "2.0") + (version "3.0") (source (origin (method url-fetch) (uri (cran-uri "showtextdb" version)) (sha256 (base32 - "1qwwj9x2jvadvwn60h75k99c9xi7yhqjsgaakahz5paxgj583bsh")))) + "0hlnc3fhgrdkd46n7hb6id0gg1v0bf8s4679nrr7rchyp455szq2")))) (properties `((upstream-name . "showtextdb"))) (build-system r-build-system) (propagated-inputs @@ -16917,14 +17100,14 @@ package.") (define-public r-showtext (package (name "r-showtext") - (version "0.8") + (version "0.8-1") (source (origin (method url-fetch) (uri (cran-uri "showtext" version)) (sha256 (base32 - "15v90s061iz9i655xin7kqb6ahnski55pgz3329wcz60bnbjb82x")))) + "1n1cd9f4zrv45k5953akclqh1jh7fy122dqkgmbfi5h122v6p2h0")))) (properties `((upstream-name . "showtext"))) (build-system r-build-system) (inputs @@ -17246,14 +17429,14 @@ data.") (define-public r-elasticnet (package (name "r-elasticnet") - (version "1.1.1") + (version "1.3") (source (origin (method url-fetch) (uri (cran-uri "elasticnet" version)) (sha256 (base32 - "0p9dplnsp28z4s2fl6afbwrgd0aj339fak8mmndicmrh7bb7rpmb")))) + "0nxcw06d0cp2mbqzg2fm9yys5xm6xx7bfcfvr0avcs8afkvz29j8")))) (properties `((upstream-name . "elasticnet"))) (build-system r-build-system) (propagated-inputs @@ -17865,16 +18048,18 @@ transcription, ...") (define-public r-seewave (package (name "r-seewave") - (version "2.1.5") + (version "2.1.6") (source (origin (method url-fetch) (uri (cran-uri "seewave" version)) (sha256 (base32 - "1qg8f5gik9pw6f9mcxqmrc9x3003s8vdm6g01pjjpyc9qaqiz2vi")))) + "123h3q0gps0vy9sikr7gjphnv9m3l4h4mykiydjllmrpaw1s1844")))) (properties `((upstream-name . "seewave"))) (build-system r-build-system) + (inputs + `(("libsndfile" ,libsndfile))) (propagated-inputs `(("r-tuner" ,r-tuner))) (home-page "http://rug.mnhn.fr/seewave") @@ -18266,14 +18451,14 @@ allowed.") (define-public r-gdina (package (name "r-gdina") - (version "2.7.9") + (version "2.8.0") (source (origin (method url-fetch) (uri (cran-uri "GDINA" version)) (sha256 (base32 - "13pmj069r04h38hg61ibyn1ab15zdy9m0qv60vi25ahgsmg6ccvx")))) + "0chxnhp37xfd78gafkgwqrmc0jf3pvpdyrkc438kl0l53fb7dld7")))) (properties `((upstream-name . "GDINA"))) (build-system r-build-system) (propagated-inputs @@ -18624,14 +18809,14 @@ API; see the package vignette for details.") (define-public r-actuar (package (name "r-actuar") - (version "2.3-3") + (version "3.0-0") (source (origin (method url-fetch) (uri (cran-uri "actuar" version)) (sha256 (base32 - "0aw3hlan5y22mdqk1wvnw9ksqhwp4yy5hi0dpv21p7s0hyxhphih")))) + "0dkp1sczldzy7kj70qvh1q59jhsq1brjybmxdz43jnx63y45llpz")))) (properties `((upstream-name . "actuar"))) (build-system r-build-system) (propagated-inputs `(("r-expint" ,r-expint))) @@ -19364,21 +19549,22 @@ automatically show a loader when the output is (re)calculating.") (define-public r-rsvg (package (name "r-rsvg") - (version "2.0") + (version "2.1") (source (origin (method url-fetch) (uri (cran-uri "rsvg" version)) (sha256 (base32 - "0r066lvyfvhsjjpiad259f1m3qk5w7hxhbyjzhlryzf3fy0hvh29")))) + "0bxnwa9sbzx6jlxrzh3ymjq81vkxil2qx7kk7wp13a0cql7dhxcn")))) (properties `((upstream-name . "rsvg"))) (build-system r-build-system) (inputs `(("librsvg" ,librsvg) ("zlib" ,zlib))) (native-inputs - `(("pkg-config" ,pkg-config))) + `(("pkg-config" ,pkg-config) + ("r-knitr" ,r-knitr))) (home-page "https://github.com/jeroen/rsvg#readme") (synopsis "Render SVG images into PDF, PNG, PostScript, or Bitmap arrays") (description @@ -19420,14 +19606,14 @@ OpenMP.") (define-public r-emplik (package (name "r-emplik") - (version "1.0-4.3") + (version "1.1-1") (source (origin (method url-fetch) (uri (cran-uri "emplik" version)) (sha256 (base32 - "1g4hz85bvw29c77zs0ig487z92jjl682vv457x81l077h0psvk7c")))) + "1kw8g8j075bsicdvgkjf4870rfv5c30gvmw6qkkaz3ki22x74w77")))) (properties `((upstream-name . "emplik"))) (build-system r-build-system) (propagated-inputs @@ -20100,14 +20286,14 @@ actuarial models such as pension mathematics.") (define-public r-sem (package (name "r-sem") - (version "3.1-9") + (version "3.1-11") (source (origin (method url-fetch) (uri (cran-uri "sem" version)) (sha256 (base32 - "1f9c6g6pfx66gd2pappcsqh484ah6a0x4z47hpd46rah0817hcsa")))) + "03j3ig6fy34pi6nwfq9w8f5m555lilw5skr1vn6ay4yvjmvavc9k")))) (properties `((upstream-name . "sem"))) (build-system r-build-system) (propagated-inputs @@ -20127,14 +20313,14 @@ least squares.") (define-public r-semtools (package (name "r-semtools") - (version "0.5-2") + (version "0.5-3") (source (origin (method url-fetch) (uri (cran-uri "semTools" version)) (sha256 (base32 - "1zj841pszfsikzp82cmh463qyc4xhdrqjqcnhc2r8mcflv12irv6")))) + "0k3w10fnq0l89inhxvnypyrfhlrm921mfn0kwyyfpndvbqizky1d")))) (properties `((upstream-name . "semTools"))) (build-system r-build-system) (propagated-inputs @@ -20176,17 +20362,20 @@ perform @dfn{exploratory mediation} (XMed).") (define-public r-stanheaders (package (name "r-stanheaders") - (version "2.19.2") + (version "2.21.0-5") (source (origin (method url-fetch) (uri (cran-uri "StanHeaders" version)) (sha256 (base32 - "0cmk0fzczx7dcywcw1dhm6gfq84qlsx77qrsk4z3bf3dhr4bznam")))) + "1zyph2x47x9a5baj5d79a1lzj7gajirisajvkrcngrjvw8bq7810")))) (properties `((upstream-name . "StanHeaders"))) (build-system r-build-system) (inputs `(("pandoc" ,ghc-pandoc))) + (propagated-inputs + `(("r-rcppeigen" ,r-rcppeigen) + ("r-rcppparallel" ,r-rcppparallel))) (native-inputs `(("gfortran" ,gfortran) ("r-knitr" ,r-knitr))) ; for vignettes @@ -20244,14 +20433,14 @@ Complete access to optimized C functions is made available with (define-public r-openmx (package (name "r-openmx") - (version "2.17.3") + (version "2.17.4") (source (origin (method url-fetch) (uri (cran-uri "OpenMx" version)) (sha256 (base32 - "1s2pcg281ag3qz2wz8yi826f2d3kj3qg916js7zz0nsrljcyv5bc")))) + "07y4w7xdb63p5kkrj6sdx1kabbsgbbj7nw9hc690jy84r15aryal")))) (properties `((upstream-name . "OpenMx"))) (build-system r-build-system) (propagated-inputs @@ -21194,15 +21383,17 @@ and an overall emphasis on typography.") (define-public r-crochet (package (name "r-crochet") - (version "2.2.0") + (version "2.3.0") (source (origin (method url-fetch) (uri (cran-uri "crochet" version)) (sha256 (base32 - "1cbv79nyycxk6f8ldcsnn2pvgxqlnrj0qs19nhafnq2clxy863k6")))) + "0zvjaf6cv0nrjb4l4llkr0mmgha7ig31p4ri2rlnqyjlxi5l8hyq")))) (build-system r-build-system) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/agrueneberg/crochet") (synopsis "Implementation Helper for Matrix-Like Types") (description @@ -21726,3 +21917,109 @@ of R without the need of linking to R code. Rserve supports remote connection, user authentication and file transfer. A simple R client is included in this package as well.") (license license:gpl2))) + +(define-public r-brms + (package + (name "r-brms") + (version "2.13.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "brms" version)) + (sha256 + (base32 + "0vdncdawxawi16f326qrgy9jjjipmqdjxh741y9p7xdzd4fwaxx3")))) + (properties `((upstream-name . "brms"))) + (build-system r-build-system) + (propagated-inputs + `(("r-abind" ,r-abind) + ("r-backports" ,r-backports) + ("r-bayesplot" ,r-bayesplot) + ("r-bridgesampling" ,r-bridgesampling) + ("r-coda" ,r-coda) + ("r-future" ,r-future) + ("r-ggplot2" ,r-ggplot2) + ("r-glue" ,r-glue) + ("r-loo" ,r-loo) + ("r-matrix" ,r-matrix) + ("r-matrixstats" ,r-matrixstats) + ("r-mgcv" ,r-mgcv) + ("r-nleqslv" ,r-nleqslv) + ("r-nlme" ,r-nlme) + ("r-rcpp" ,r-rcpp) + ("r-rstan" ,r-rstan) + ("r-rstantools" ,r-rstantools) + ("r-shinystan" ,r-shinystan))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://github.com/paul-buerkner/brms") + (synopsis + "Bayesian Regression Models using 'Stan'") + (description + "Fit Bayesian generalized (non-)linear multivariate multilevel models +using 'Stan' for full Bayesian inference. A wide range of distributions and +link functions are supported, allowing users to fit -- among others -- linear, +robust linear, count data, survival, response times, ordinal, zero-inflated, +hurdle, and even self-defined mixture models all in a multilevel context. +Further modeling options include non-linear and smooth terms, auto-correlation +structures, censored data, meta-analytic standard errors, and quite a few +more. In addition, all parameters of the response distribution can be +predicted in order to perform distributional regression. Prior specifications +are flexible and explicitly encourage users to apply prior distributions that +actually reflect their beliefs. Model fit can easily be assessed and compared +with posterior predictive checks and leave-one-out cross-validation.") + (license license:gpl2))) + +(define-public r-mstate + (package + (name "r-mstate") + (version "0.2.12") + (source + (origin + (method url-fetch) + (uri (cran-uri "mstate" version)) + (sha256 + (base32 + "0qnhivbibzss8yfsg44cvbf73n4jj4i28rbdysl88g14ig5sabgv")))) + (properties `((upstream-name . "mstate"))) + (build-system r-build-system) + (propagated-inputs + `(("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-survival" ,r-survival))) + (home-page + "https://www.lumc.nl/org/bds/research/medische-statistiek/survival-analysis/") + (synopsis + "Data Preparation, Estimation and Prediction in Multi-State Models") + (description + "Contains functions for data preparation, descriptives, hazard estimation +and prediction with Aalen-Johansen or simulation in competing risks and +multi-state models.") + (license license:gpl2+))) + +(define-public r-scatterpie + (package + (name "r-scatterpie") + (version "0.1.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "scatterpie" version)) + (sha256 + (base32 + "0g5sn0iv6c1q7y51j4gbbbnil5089dgk1w4q94c7h5y3x7wfrzqb")))) + (properties `((upstream-name . "scatterpie"))) + (build-system r-build-system) + (propagated-inputs + `(("r-ggforce" ,r-ggforce) + ("r-ggplot2" ,r-ggplot2) + ("r-rlang" ,r-rlang) + ("r-rvcheck" ,r-rvcheck) + ("r-tidyr" ,r-tidyr))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://cran.r-project.org/web/packages/scatterpie/") + (synopsis "Scatter pie plot") + (description + "This package creates scatterpie plots, especially useful for plotting +pies on a map.") + (license license:artistic2.0))) |