diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 1561 |
1 files changed, 1370 insertions, 191 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 0943a8972b..b9842ca954 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -26,7 +26,7 @@ ;;; Copyright © 2020 Eric Brown <ecbrown@ericcbrown.com> ;;; Copyright © 2020 Peter Lo <peterloleungyau@gmail.com> ;;; Copyright © 2020 Rafael Luque Leiva <rafael.luque@osoco.es> -;;; Copyright © 2020 Lars-Dominik Braun <ldb@leibniz-psychology.org> +;;; Copyright © 2020, 2021 Lars-Dominik Braun <ldb@leibniz-psychology.org> ;;; Copyright © 2020 Vinicius Monego <monego@posteo.net> ;;; Copyright © 2020 Antoine Côté <antoine.cote@posteo.net> ;;; Copyright © 2020 Arun Isaac <arunisaac@systemreboot.net> @@ -91,6 +91,7 @@ #:use-module (gnu packages networking) #:use-module (gnu packages node) #:use-module (gnu packages pcre) + #:use-module (gnu packages pdf) #:use-module (gnu packages perl) #:use-module (gnu packages pkg-config) #:use-module (gnu packages pulseaudio) ;libsndfile @@ -99,6 +100,7 @@ #:use-module (gnu packages sqlite) #:use-module (gnu packages statistics) #:use-module (gnu packages tcl) + #:use-module (gnu packages textutils) #:use-module (gnu packages tls) #:use-module (gnu packages version-control) #:use-module (gnu packages web) @@ -129,14 +131,14 @@ files and provide more explicit control over line endings.") (define-public r-cachem (package (name "r-cachem") - (version "1.0.3") + (version "1.0.4") (source (origin (method url-fetch) (uri (cran-uri "cachem" version)) (sha256 (base32 - "0y3jb96lyn3vc3nq8gs9x669w3xp69vdg5xc69qy0l356r39gp3r")))) + "1b1gk837rk9kbfq385ybrrk12ckxwvhjvf0z9635l3vw49wal4mh")))) (properties `((upstream-name . "cachem"))) (build-system r-build-system) (propagated-inputs @@ -175,14 +177,14 @@ visualization of their differences.") (define-public r-waldo (package (name "r-waldo") - (version "0.2.3") + (version "0.2.5") (source (origin (method url-fetch) (uri (cran-uri "waldo" version)) (sha256 (base32 - "0lsw8p4wiggqm9fvh5vgmf0ms0npcg3hcwyzlg5ahv5yx4pv5fhz")))) + "09jhwpgd6hg4qyip4r7wzpjz0jr139fyspd5ncriqimp522snqbr")))) (properties `((upstream-name . "waldo"))) (build-system r-build-system) (propagated-inputs @@ -205,14 +207,14 @@ easier.") (define-public r-rticles (package (name "r-rticles") - (version "0.18") + (version "0.19") (source (origin (method url-fetch) (uri (cran-uri "rticles" version)) (sha256 (base32 - "1srczjy9dqw06glrv95798xsg462kfbbwm3yk1fv1zhpz9jhakwv")))) + "1zcj5y54z1max1df9j2iclm6zlcic4wj684y18wcnmmdwfs51818")))) (properties `((upstream-name . "rticles"))) (build-system r-build-system) (propagated-inputs @@ -341,13 +343,13 @@ the system clipboards.") (define-public r-zoo (package (name "r-zoo") - (version "1.8-8") + (version "1.8-9") (source (origin (method url-fetch) (uri (cran-uri "zoo" version)) (sha256 (base32 - "1rrw431jwaxd9xljp73f15rhcxvwc0xlyrmr0ghi5fj7a03c932f")))) + "18vjywalpgzqyk66gajb8x1yp8avdaaf11ykynld9fd8cy82bgmp")))) (build-system r-build-system) (propagated-inputs `(("r-lattice" ,r-lattice))) @@ -871,18 +873,21 @@ single step.") (define-public r-rvest (package (name "r-rvest") - (version "0.3.6") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "rvest" version)) (sha256 - (base32 "1yh2p429a0zr8pqmlw5rzf6m797j20j5w6xwxlqq0wrdbnif6bka")))) + (base32 "04spcv6nxlmx5bxncq0vybfqrs8jgjamzyrn6wmkdcwii8jvyn53")))) (build-system r-build-system) (propagated-inputs `(("r-httr" ,r-httr) + ("r-lifecycle" ,r-lifecycle) ("r-magrittr" ,r-magrittr) + ("r-rlang" ,r-rlang) ("r-selectr" ,r-selectr) + ("r-tibble" ,r-tibble) ("r-xml2" ,r-xml2))) (native-inputs `(("r-knitr" ,r-knitr))) @@ -1344,6 +1349,61 @@ are used. Fastmap avoids this memory leak issue by implementing the map using data structures in C++.") (license license:expat))) +(define-public r-fastghquad + (package + (name "r-fastghquad") + (version "1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "fastGHQuad" version)) + (sha256 + (base32 + "1rjia8wggadr9xwxcmzmal0rc4g6pa3dr5888fbbnb6abl8b2lrj")))) + (properties `((upstream-name . "fastGHQuad"))) + (build-system r-build-system) + (propagated-inputs + `(("r-rcpp" ,r-rcpp))) + (home-page "https://github.com/awblocker/fastGHQuad") + (synopsis "Fast Rcpp implementation of Gauss-Hermite Quadrature") + (description + "This package implements numerically-stable Gauss-Hermite quadrature +rules and utility functions for adaptive GH quadrature.") + (license license:expat))) + +(define-public r-rstpm2 + (package + (name "r-rstpm2") + (version "1.5.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "rstpm2" version)) + (sha256 + (base32 + "0c6l3z250b2kn6mh2xyb0bd2y5nsbj11n9xfi51dac9s8xq3v7m4")))) + (properties `((upstream-name . "rstpm2"))) + (build-system r-build-system) + (propagated-inputs + `(("r-bbmle" ,r-bbmle) + ("r-bh" ,r-bh) + ("r-desolve" ,r-desolve) + ("r-fastghquad" ,r-fastghquad) + ("r-mgcv" ,r-mgcv) + ("r-rcpp" ,r-rcpp) + ("r-rcpparmadillo" ,r-rcpparmadillo) + ("r-survival" ,r-survival))) + (native-inputs + `(("gfortran" ,gfortran))) + (home-page "https://github.com/mclements/rstpm2") + (synopsis "Link-based survival models") + (description + "This package provides R implementations of @dfn{generalized survival +models} (GSMs), smooth @dfn{accelerated failure time} (AFT) models and Markov +multi-state models.") + ;; One of these licenses + (license (list license:gpl2 license:gpl3)))) + ;; This package includes minified JavaScript files. When upgrading please ;; check that there are no new minified JavaScript files. (define-public r-jquerylib @@ -2491,6 +2551,30 @@ inspired by Python's Literal String Interpolation (PEP-0498) and Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.") (license license:expat))) +(define-public r-palmerpenguins + (package + (name "r-palmerpenguins") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "palmerpenguins" version)) + (sha256 + (base32 + "0q1k3cdkliq7kwrg1n0vs9b6cjwyfarhlgdijhp9c6riy6y5ik7x")))) + (properties + `((upstream-name . "palmerpenguins"))) + (build-system r-build-system) + (home-page "https://allisonhorst.github.io/palmerpenguins/") + (synopsis "Palmer Archipelago (Antarctica) penguin data") + (description + "This package includes size measurements, clutch observations, and blood +isotope ratios for adult foraging Adélie, Chinstrap, and Gentoo penguins +observed on islands in the Palmer Archipelago near Palmer Station, Antarctica. +Data were collected and made available by Dr. Kristen Gorman and the Palmer +Station Long Term Ecological Research (LTER) Program.") + (license license:cc0))) + (define-public r-pastecs (package (name "r-pastecs") @@ -2515,13 +2599,13 @@ initiative to bring PASSTEC 2000 functionalities to R.") (define-public r-partykit (package (name "r-partykit") - (version "1.2-12") + (version "1.2-13") (source (origin (method url-fetch) (uri (cran-uri "partykit" version)) (sha256 (base32 - "15d5g89winndv8cy8jjjxy87fliafp5zyb8b58czrijwcmagg50l")))) + "15bfhqvx2y4vclnc3sw4v7ggs70pk57b3qk9aqjfvdrx444d2gd4")))) (build-system r-build-system) (propagated-inputs `(("r-formula" ,r-formula) @@ -2595,13 +2679,13 @@ print, summary, plot, update, etc. (define-public r-ps (package (name "r-ps") - (version "1.5.0") + (version "1.6.0") (source (origin (method url-fetch) (uri (cran-uri "ps" version)) (sha256 - (base32 "15pyz94b0z6ibrjp25np5nd4z20whnnr35wsavdgwmsmynba2qbl")))) + (base32 "0cdzjqgap108whhsilxllg12m2d05pgksryhrz5bq608bvf7vbc9")))) (build-system r-build-system) (home-page "https://ps.r-lib.org") (synopsis "List, query, and manipulate system processes") @@ -2641,14 +2725,14 @@ is configured appropriately so R can use them.") (define-public r-pkgload (package (name "r-pkgload") - (version "1.1.0") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "pkgload" version)) (sha256 (base32 - "03bv8xq4s6s7m34y1kjs99jzlb95vwrfi76mbnhmzcx2pc6ld78q")))) + "185xr79z2vncq62bni7x4qv3p7dxvnfsbdnnglma0a196hz6pj7v")))) (build-system r-build-system) (propagated-inputs `(("r-cli" ,r-cli) @@ -3047,14 +3131,14 @@ in main memory.") (define-public r-ffbase (package (name "r-ffbase") - (version "0.13.1") + (version "0.13.3") (source (origin (method url-fetch) (uri (cran-uri "ffbase" version)) (sha256 (base32 - "0knl0vnh8w4q3ry24gp4fd55ipnaj9hb1rwm31fs119kgmh3gd8x")))) + "1dp6lblfq2j7r1b4b8ls47jlx8j27n88d5vp8w116lb8pa01zxmk")))) (build-system r-build-system) (propagated-inputs `(("r-bit" ,r-bit) @@ -3167,14 +3251,14 @@ package also provides a C++ API, that works with or without Rcpp.") (define-public r-ggally (package (name "r-ggally") - (version "2.1.0") + (version "2.1.1") (source (origin (method url-fetch) (uri (cran-uri "GGally" version)) (sha256 (base32 - "0lvcvlc8p2cii7rqx7m81f7cv3kk9mlf7cbbgv7l75g7ljw8dyvz")))) + "0lly659kd43cnz1bmmzqj6dbf4v0nm8dhj8xq2wlv9qbnfhq5r9p")))) (properties `((upstream-name . "GGally"))) (build-system r-build-system) (inputs @@ -3206,14 +3290,14 @@ plot networks.") (define-public r-proxy (package (name "r-proxy") - (version "0.4-24") + (version "0.4-25") (source (origin (method url-fetch) (uri (cran-uri "proxy" version)) (sha256 (base32 - "0z4wdnpv5x135nssxnmkkba7fivd5xgbpaabqjkl2na76vq9pzwc")))) + "1m893djrv6ckadmlx9n5bxfp0ycdh2w63sy6yxfyj1migvc7072f")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/proxy") (synopsis "Distance and similarity measures") @@ -3289,13 +3373,13 @@ matrices.") (define-public r-rmpi (package (name "r-rmpi") - (version "0.6-9") + (version "0.6-9.1") (source (origin (method url-fetch) (uri (cran-uri "Rmpi" version)) (sha256 (base32 - "1rhycla98hxgnnxlxxldr1x51djak7c2jjvlrv3jcsvgwp1ymqdj")))) + "1j8akqjan59yzwx2s1zxc214qyd323fd2i2dhgq0n11mb6ajmq4r")))) (properties `((upstream-name . "Rmpi"))) (build-system r-build-system) (arguments @@ -3671,17 +3755,18 @@ data). Weighted versions of MLE, MME and QME are available.") (define-public r-energy (package (name "r-energy") - (version "1.7-7") + (version "1.7-8") (source (origin (method url-fetch) (uri (cran-uri "energy" version)) (sha256 (base32 - "13wnx5nwk7nsv7vf5sxhz4y0rxrnzm76ldgywk1bxrz67srqzf37")))) + "12a7gy681aq3l55iys044cs6sn1s2l5qihghpdl01cvv0ggfh26y")))) (build-system r-build-system) (propagated-inputs `(("r-boot" ,r-boot) + ("r-gsl" ,r-gsl) ("r-rcpp" ,r-rcpp))) (home-page "https://cran.r-project.org/web/packages/energy") (synopsis "Multivariate inference via the energy of data") @@ -3806,14 +3891,14 @@ available in a vignette.") (define-public r-lava (package (name "r-lava") - (version "1.6.8.1") + (version "1.6.9") (source (origin (method url-fetch) (uri (cran-uri "lava" version)) (sha256 (base32 - "1yiz8y3jhxkszgz9m9fialp9r27hy97xh0imfvs8ziv7dk43y93d")))) + "07difbrz8zmvdyns63958v0zw4hyv48956mcww8zh7064a564k83")))) (build-system r-build-system) (propagated-inputs `(("r-numderiv" ,r-numderiv) @@ -4134,14 +4219,14 @@ provided.") (define-public r-ipred (package (name "r-ipred") - (version "0.9-9") + (version "0.9-11") (source (origin (method url-fetch) (uri (cran-uri "ipred" version)) (sha256 (base32 - "0vs1hqfx7yd0xdbmfsf2gim7spkni0845cj6gswn0nhdfdq7ma0d")))) + "04hfg27c72v0fz4091w3rgbc2vd7g6yl78y9plvsvh0vjlx8ymmp")))) (build-system r-build-system) (propagated-inputs `(("r-class" ,r-class) @@ -4214,14 +4299,14 @@ by base R methods related to model fitting.") (define-public r-broom (package (name "r-broom") - (version "0.7.4") + (version "0.7.5") (source (origin (method url-fetch) (uri (cran-uri "broom" version)) (sha256 (base32 - "1zwdgv59a5c4mdcfn3anvsf83ymi11ij6k9nssw3aqzirp6fwg3w")))) + "1qjyl5b100bsakm48w1vi3819lkpys7vb86n1sv9h4y2wr1c4jmw")))) (build-system r-build-system) (propagated-inputs `(("r-backports" ,r-backports) @@ -4987,14 +5072,14 @@ plots in @code{ggplot2}.") (define-public r-cli (package (name "r-cli") - (version "2.3.0") + (version "2.3.1") (source (origin (method url-fetch) (uri (cran-uri "cli" version)) (sha256 (base32 - "128bx3bds0dnkixc4frbky11rz1ilnvdfzz9mggajj690i11b62q")))) + "1jh64ixn6mg2ap1sx4azrxkjnlsyjbfxyc9zjkx8m9dlakgf4v2i")))) (build-system r-build-system) (propagated-inputs `(("r-assertthat" ,r-assertthat) @@ -5009,14 +5094,14 @@ rules, boxes, trees, and Unicode symbols with ASCII alternatives.") (define-public r-argparser (package (name "r-argparser") - (version "0.6") + (version "0.7.1") (source (origin (method url-fetch) (uri (cran-uri "argparser" version)) (sha256 (base32 - "1pxiz9jlhlnpzqn1lz349r07i7glw708w202x6dlnxp112fg7k4x")))) + "0xcl0ivsbc4iw8s7027q4cx68j6s5lihbby0xa9pmlv4wjmcvdr6")))) (build-system r-build-system) (home-page "https://bitbucket.org/djhshih/argparser") (synopsis "Command-line argument parser") @@ -5197,13 +5282,13 @@ iVAT).") (define-public r-xfun (package (name "r-xfun") - (version "0.21") + (version "0.22") (source (origin (method url-fetch) (uri (cran-uri "xfun" version)) (sha256 - (base32 "18qjs81fn8q2d2drcan8gpgvrbgxgd0b659c92z19kg2h4c1g3k4")))) + (base32 "0ix3p0iw2c60whn5mvsflh0vhm4yixhw4s9d9v4023qhp077nw9y")))) (build-system r-build-system) ;; knitr itself depends on xfun #; @@ -5219,15 +5304,17 @@ packages maintained by Yihui Xie.") (define-public r-utf8 (package (name "r-utf8") - (version "1.1.4") + (version "1.2.1") (source (origin (method url-fetch) (uri (cran-uri "utf8" version)) (sha256 (base32 - "0m0ywg8k3blfiahxvh1i4zn9dksrlc937d2lbza5fc38zjnrrnpn")))) + "1yw7vjn3gpkqddc91rbfh4kk0zmn2kp0jycrd3066sissh01jhdk")))) (build-system r-build-system) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/patperry/r-utf8") (synopsis "Unicode text processing") (description @@ -5299,14 +5386,14 @@ to variables on the left-hand side of the assignment.") (define-public r-pillar (package (name "r-pillar") - (version "1.4.7") + (version "1.5.1") (source (origin (method url-fetch) (uri (cran-uri "pillar" version)) (sha256 (base32 - "167ji21fx04s2niw5pjq9vzxgagxzsg3gimh8dzr2kl5ljrb5vfd")))) + "0wp68cg95895aybi7yjqy0sidvc68lmfqndinpd63dysci9x3r8c")))) (build-system r-build-system) (propagated-inputs `(("r-cli" ,r-cli) @@ -5317,6 +5404,8 @@ to variables on the left-hand side of the assignment.") ("r-rlang" ,r-rlang) ("r-utf8" ,r-utf8) ("r-vctrs" ,r-vctrs))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/r-lib/pillar") (synopsis "Coloured formatting for columns") (description @@ -5347,14 +5436,14 @@ terminals.") (define-public r-tinytex (package (name "r-tinytex") - (version "0.29") + (version "0.30") (source (origin (method url-fetch) (uri (cran-uri "tinytex" version)) (sha256 (base32 - "0my1412vn5zri01w2myzn268lfwinbhfgdj4bbcib3s48i9djw0n")))) + "0dk6mpszwh1m65b0wfwjlcvpzywmasf6p31niqiq53wnd92my0gw")))) (build-system r-build-system) (propagated-inputs `(("r-xfun" ,r-xfun))) @@ -6786,14 +6875,14 @@ dependency on Java.") (define-public r-rio (package (name "r-rio") - (version "0.5.16") + (version "0.5.26") (source (origin (method url-fetch) (uri (cran-uri "rio" version)) (sha256 (base32 - "0rfl56fdawlhc98451a9lcb6a6m56kw0i7dvd5hx58z025d8vsyk")))) + "1k6zxjb2bb0z6rv7zmkbaz85cbvs84mj602ikkwk60alh8kpdw2d")))) (build-system r-build-system) (propagated-inputs `(("r-curl" ,r-curl) @@ -6803,6 +6892,8 @@ dependency on Java.") ("r-openxlsx" ,r-openxlsx) ("r-readxl" ,r-readxl) ("r-tibble" ,r-tibble))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/leeper/rio") (synopsis "Swiss-army knife for data I/O") (description @@ -6820,14 +6911,14 @@ simple method for converting between file types.") (define-public r-maptools (package (name "r-maptools") - (version "1.0-2") + (version "1.1-1") (source (origin (method url-fetch) (uri (cran-uri "maptools" version)) (sha256 (base32 - "0jgf3wg47jdnznxb3ncv4is9ackwviy4lzcyggqwzw3wh6jnvb6s")))) + "0pn4gwh2rl6pfh2vbc7ln86kzlg22cfpd02z95j7zpjidz2mva8l")))) (build-system r-build-system) (propagated-inputs `(("r-foreign" ,r-foreign) @@ -6873,14 +6964,14 @@ time after the current time, after the R execution stack has emptied.") (define-public r-promises (package (name "r-promises") - (version "1.1.1") + (version "1.2.0.1") (source (origin (method url-fetch) (uri (cran-uri "promises" version)) (sha256 (base32 - "002qkhcn3ri6a3w5fizjvdvrjgvqiw8i7rl9jglcnqik5kmwc61p")))) + "1dy4cbqw17awh4q8m7cy3anaj0n9iynabfzflb1g94cyj0bq4fld")))) (build-system r-build-system) (propagated-inputs `(("r-later" ,r-later) @@ -7164,14 +7255,14 @@ Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.") (define-public r-rastervis (package (name "r-rastervis") - (version "0.49") + (version "0.50") (source (origin (method url-fetch) (uri (cran-uri "rasterVis" version)) (sha256 (base32 - "0d12h7xqcwy1wps6yya9nzfppbnsxpmbkqmy3a8pvxpg81l632kk")))) + "0m7fjd53apxim0d0rjnyzc28vmfcg4spcrn0zbnk8llillxji1hi")))) (properties `((upstream-name . "rasterVis"))) (build-system r-build-system) (propagated-inputs @@ -7181,6 +7272,7 @@ Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.") ("r-raster" ,r-raster) ("r-rcolorbrewer" ,r-rcolorbrewer) ("r-sp" ,r-sp) + ("r-terra" ,r-terra) ("r-viridislite" ,r-viridislite) ("r-zoo" ,r-zoo))) (home-page "https://oscarperpinan.github.io/rastervis/") @@ -7222,14 +7314,14 @@ those searches and pull data into their R sessions.") (define-public r-renv (package (name "r-renv") - (version "0.12.5") + (version "0.13.0") (source (origin (method url-fetch) (uri (cran-uri "renv" version)) (sha256 (base32 - "0wfq1z5glng6jrfxj25mjhp129z6468gaszr9ggks5gp8lrwszzh")))) + "16n2dz9jibc03f7q1wrzxss6l5jmaks7m2lnli9dz9anvcmxbdia")))) (properties `((upstream-name . "renv"))) (build-system r-build-system) (native-inputs @@ -7412,14 +7504,14 @@ movies, and TV shows.") (define-public r-ggsignif (package (name "r-ggsignif") - (version "0.6.0") + (version "0.6.1") (source (origin (method url-fetch) (uri (cran-uri "ggsignif" version)) (sha256 (base32 - "17j9hg967k1wp9xw3x84mqss58jkb8pvlrnlchz4i1hklgykxqbg")))) + "0rjy9wqsq67jjm1jz3j7hm599x0rshrrhw2w01iaqb9kf506hvjh")))) (build-system r-build-system) (native-inputs `(("r-knitr" ,r-knitr))) @@ -7439,14 +7531,14 @@ and adds the annotation to the plot.") (define-public r-rstatix (package (name "r-rstatix") - (version "0.6.0") + (version "0.7.0") (source (origin (method url-fetch) (uri (cran-uri "rstatix" version)) (sha256 (base32 - "0nwwvxwr4z3j4n9z8cnvwghppc836g47n0ia98chk272qwh8xcpb")))) + "0330y8iziffqg8j9j5h9zv4qcdyf8ybhmzxrr9fzq9nc6bf1gbm5")))) (properties `((upstream-name . "rstatix"))) (build-system r-build-system) (propagated-inputs @@ -7815,19 +7907,18 @@ implemented in bibutils.") (define-public r-rdpack (package (name "r-rdpack") - (version "2.1") + (version "2.1.1") (source (origin (method url-fetch) (uri (cran-uri "Rdpack" version)) (sha256 (base32 - "1kmz0kq2z1xl55w22paz98x9jpss06abvicmkslv4zq77kz99q16")))) + "11psw5yiamq0g7jc6fqn2wis565i60qgda4a5d09qi8fyzd6mnfb")))) (properties `((upstream-name . "Rdpack"))) (build-system r-build-system) (propagated-inputs - `(("r-rbibutils" ,r-rbibutils) - ("r-gbrd" ,r-gbrd))) + `(("r-rbibutils" ,r-rbibutils))) (home-page "https://github.com/GeoBosh/Rdpack") (synopsis "Update and manipulate Rd documentation objects") (description @@ -7842,14 +7933,14 @@ references and Rd files.") (define-public r-officer (package (name "r-officer") - (version "0.3.16") + (version "0.3.17") (source (origin (method url-fetch) (uri (cran-uri "officer" version)) (sha256 (base32 - "1ls5kp70jfxrzxxb3xrg8sn2fyk6qd7rmx23n5jxi7z7850avjrj")))) + "1apg0dh1zfhrqcbbmm8318l40gyjbqc2l9sdvwxx7qi8mzc1mqvw")))) (build-system r-build-system) (propagated-inputs `(("r-r6" ,r-r6) @@ -8103,14 +8194,14 @@ other add-on packages.") (define-public r-insight (package (name "r-insight") - (version "0.12.0") + (version "0.13.1") (source (origin (method url-fetch) (uri (cran-uri "insight" version)) (sha256 (base32 - "0gkvcw9d729ql1gfrpxzgrag4xafd0hchrdww215qz11ma1rzy7s")))) + "1la4yxzfl9fnknamnaziil6gvpdzl78z16lfzis9jgzg8r9q0y5l")))) (build-system r-build-system) (native-inputs `(("r-knitr" ,r-knitr))) @@ -8239,14 +8330,14 @@ functions.") (define-public r-flextable (package (name "r-flextable") - (version "0.6.3") + (version "0.6.4") (source (origin (method url-fetch) (uri (cran-uri "flextable" version)) (sha256 (base32 - "0as80m19lvajc0vzllq9d9p63zglsm2ph7vdfg3jgk90jp8j76dg")))) + "1ykjfnqhn8nd9f3l4jj8hf1bbjjckkna3p7fdsg0a73c05a17yma")))) (build-system r-build-system) (propagated-inputs `(("r-base64enc" ,r-base64enc) @@ -8465,14 +8556,14 @@ Group (Non-)Overlap considerations.") (define-public r-deriv (package (name "r-deriv") - (version "4.1.2") + (version "4.1.3") (source (origin (method url-fetch) (uri (cran-uri "Deriv" version)) (sha256 (base32 - "1j9sh1w9lsnnhlh59g4ghykyfx46rxh380s8imvm7pzna7rw7c64")))) + "130g3mv0z9sqs6y23a0a94512iiw05yr6fp378vhdxxbignzbnyv")))) (properties `((upstream-name . "Deriv"))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/Deriv") @@ -8487,14 +8578,14 @@ the work.") (define-public r-doby (package (name "r-doby") - (version "4.6.8") + (version "4.6.9") (source (origin (method url-fetch) (uri (cran-uri "doBy" version)) (sha256 (base32 - "0r97kwsj6g87m7shgnjc5c9y71jkhiq4xd9q0s2bxl0vl92qqwvg")))) + "02f545md5yhbpp3wb3q2c8zabqwgf02555r5c6g7znab5zjbyr00")))) (properties `((upstream-name . "doBy"))) (build-system r-build-system) (propagated-inputs @@ -8573,14 +8664,14 @@ procedures to speed up calculations in R.") (define-public r-blockfest (package (name "r-blockfest") - (version "1.8") + (version "2.0") (source (origin (method url-fetch) (uri (cran-uri "BlockFeST" version)) (sha256 (base32 - "12cbrmgqszlj729zrn9d1d7drbr0iay43knnmrzcxs6v7lfszsx5")))) + "1fcl3yc1cf09znqbj787d3fd2kl5rp63la7pxawsgmap7nxwkp65")))) (properties `((upstream-name . "BlockFeST"))) (build-system r-build-system) (propagated-inputs `(("r-basix" ,r-basix))) @@ -8921,22 +9012,22 @@ and coverage methods to tune the choice of threshold.") (define-public r-labelled (package (name "r-labelled") - (version "2.7.0") + (version "2.8.0") (source (origin (method url-fetch) (uri (cran-uri "labelled" version)) (sha256 (base32 - "1nsb0mh0jg7gggc41b6v55nmfq07g0qn9fy55x4jws5dscs6pdmi")))) + "0fs8fhmk9j2nv2j87mpkmm0clz34f8kybnzn6pzqpcbwk0i2pcwg")))) (properties `((upstream-name . "labelled"))) (build-system r-build-system) (propagated-inputs `(("r-dplyr" ,r-dplyr) ("r-haven" ,r-haven) ("r-lifecycle" ,r-lifecycle) - ("r-pillar" ,r-pillar) ("r-rlang" ,r-rlang) + ("r-stringr" ,r-stringr) ("r-tidyr" ,r-tidyr) ("r-vctrs" ,r-vctrs))) (native-inputs @@ -9600,14 +9691,14 @@ samples is large and the number of mixture components is not too large.") (define-public r-magick (package (name "r-magick") - (version "2.6.0") + (version "2.7.0") (source (origin (method url-fetch) (uri (cran-uri "magick" version)) (sha256 (base32 - "1k4fqhxh2ppynl56fs044wpn4wk6gbv6lwp2x4x7j67zwcv56n36")))) + "0m1kij6pp7dmsrhl80h60iyccjqmbbb3zdnqdc9sgy1kj1x3pscp")))) (build-system r-build-system) (inputs `(("imagemagick" ,imagemagick) @@ -10362,14 +10453,14 @@ results using @code{ggplot2}.") (define-public r-effectsize (package (name "r-effectsize") - (version "0.4.3") + (version "0.4.4") (source (origin (method url-fetch) (uri (cran-uri "effectsize" version)) (sha256 (base32 - "1hcrnax9wf0nwsb8nv15rxw8yy8w5dak16dw3w5bxi8xnf56lkz2")))) + "0mgkq12ym72ncakkjpkzkjglhksyhj3iw8v4a8fjgpf7prvn191g")))) (properties `((upstream-name . "effectsize"))) (build-system r-build-system) (propagated-inputs @@ -10590,14 +10681,14 @@ user credentials.") (define-public r-gert (package (name "r-gert") - (version "1.1.0") + (version "1.2.0") (source (origin (method url-fetch) (uri (cran-uri "gert" version)) (sha256 (base32 - "09har6mj7qy813s6dxyzfzmjwg60m8c01yx3q6lfsnvwqzxlqxv8")))) + "0ag2ia6cfb5drf3517lg5nhik1w0nv09a75wdy5jdciws1qra3d6")))) (properties `((upstream-name . "gert"))) (build-system r-build-system) (inputs @@ -10968,14 +11059,14 @@ the interfaces between R and C++.") (define-public r-mvabund (package (name "r-mvabund") - (version "4.1.6") + (version "4.1.9") (source (origin (method url-fetch) (uri (cran-uri "mvabund" version)) (sha256 (base32 - "0aisvax9d7bk6aykrcdcn1ji618r520mcrkr1i3jnck1qs31z41f")))) + "19kyg0agjk7gxipa5kmklz4cqh97xrdbibmmy1g99r1gp3s9ml30")))) (build-system r-build-system) (propagated-inputs `(("r-mass" ,r-mass) @@ -11157,14 +11248,14 @@ package provides a minimal R interface by relying on the Rcpp package.") (define-public r-rcppparallel (package (name "r-rcppparallel") - (version "5.0.2") + (version "5.0.3") (source (origin (method url-fetch) (uri (cran-uri "RcppParallel" version)) (sha256 (base32 - "10bg4fw38m64dhy543rwq2nnjjc9y24iggk343xslrb3ij8018lc")))) + "0ihcirny4al2ydymxhdfacwmybmrgrz5nm0lbf49gk2zy8w124ki")))) (properties `((upstream-name . "RcppParallel"))) (build-system r-build-system) (home-page "https://rcppcore.github.io/RcppParallel/") @@ -11226,14 +11317,14 @@ Bioconductor packages.") (define-public r-rgl (package (name "r-rgl") - (version "0.104.16") + (version "0.105.22") (source (origin (method url-fetch) (uri (cran-uri "rgl" version)) (sha256 (base32 - "169a8riiam8445nl7rcwn0x92dlwyzh5xldvap6dcxjyjqmjwbdq")))) + "1y69phym8pkdh1k808y3rp1030xmhjpc8vig9035v9n1r7v7a1kz")))) (build-system r-build-system) (native-inputs `(("pkg-config" ,pkg-config) @@ -11421,14 +11512,14 @@ Scientific.") (define-public r-activity (package (name "r-activity") - (version "1.3") + (version "1.3.1") (source (origin (method url-fetch) (uri (cran-uri "activity" version)) (sha256 (base32 - "12imqj366dp6pam5gap6ji56p5wf1073xz5g4iikfxf5l8snxw92")))) + "1wn2a0hx7wfr2jyj1b772w5fgl6bcqkkw8cybais2s1wyjx8kjr5")))) (build-system r-build-system) (propagated-inputs `(("r-circular" ,r-circular) @@ -11447,14 +11538,14 @@ circular variables).") (define-public r-ouch (package (name "r-ouch") - (version "2.14-1") + (version "2.15-1") (source (origin (method url-fetch) (uri (cran-uri "ouch" version)) (sha256 (base32 - "0ddf9bw5lhj8vb0ja78jf99i0smq4rgmm842k4a4ygap41vdyn2b")))) + "0myddn3b28pswyk42kvwhyvkj30q41f677vpxclxacdfkhgvrj6q")))) (build-system r-build-system) (propagated-inputs `(("r-subplex" ,r-subplex))) (home-page "https://kingaa.github.io/ouch/") @@ -11605,16 +11696,18 @@ components).") (define-public r-fftwtools (package (name "r-fftwtools") - (version "0.9-9") + (version "0.9-11") (source (origin (method url-fetch) (uri (cran-uri "fftwtools" version)) (sha256 (base32 - "0h8lyl2i6zq16ir7xnfj9dhyivxvwikm8lml19s8s8jx95z3n9x9")))) + "0zrchp4l0jdbir2gibjf00x225y9giqk80zvqmr2yyvc12lwkw7i")))) (build-system r-build-system) (inputs `(("fftw" ,fftw))) + (native-inputs + `(("pkg-config" ,pkg-config))) (home-page "https://github.com/krahim/fftwtools") (synopsis "Wrapper for FFTW3") (description @@ -11630,14 +11723,14 @@ redundant complex conjugate when the input is real data.") (define-public r-tiff (package (name "r-tiff") - (version "0.1-6") + (version "0.1-7") (source (origin (method url-fetch) (uri (cran-uri "tiff" version)) (sha256 (base32 - "1yy4im2lwzhjnnkfwxgkknsajvm83pcwaf370pkgfva2db0xjfv2")))) + "101n6x70fr1dhcwx53g3s8q1j4wh93y0388v1s1316f8558rxqxh")))) (build-system r-build-system) (inputs `(("libtiff" ,libtiff) @@ -12544,14 +12637,14 @@ and manipulating sets of ontological terms.") (define-public r-gargle (package (name "r-gargle") - (version "0.5.0") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "gargle" version)) (sha256 (base32 - "1fykmiv3x8c9ai31r9wr7qcca51h6kqn9cgwbxvxfj15fhwskh4n")))) + "0hsqn4hf935wn6vk2pwym7la4sdvy271y4cashp38pg4hkpg9zph")))) (build-system r-build-system) (propagated-inputs `(("r-fs" ,r-fs) @@ -13078,14 +13171,14 @@ to throw errors if they aren't in the right form.") (define-public r-dotcall64 (package (name "r-dotcall64") - (version "1.0-0") + (version "1.0-1") (source (origin (method url-fetch) (uri (cran-uri "dotCall64" version)) (sha256 (base32 - "1b8p7m3w0m7bp977c6jz74xkd611cxg11j49yza59k5fp338scb9")))) + "1im5k8jbviwj2i42mq1kmjskh80isa7jr9w8i0fknidrzzy2h2zi")))) (properties `((upstream-name . "dotCall64"))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) @@ -13424,14 +13517,14 @@ model with finite state space using the Aalen-Johansen estimator.") (define-public r-epi (package (name "r-epi") - (version "2.43") + (version "2.44") (source (origin (method url-fetch) (uri (cran-uri "Epi" version)) (sha256 (base32 - "0wsjvilcivrhy2kh2dcagkzy7bjmfa0sq9xjpv6qb4b0nc0mv089")))) + "1wcxr1f7irgfdwzz4vf67114yhxrhxxxnhy4hfaww0zy91vzxx10")))) (properties `((upstream-name . "Epi"))) (build-system r-build-system) (propagated-inputs @@ -13608,14 +13701,14 @@ them in distributed compute environments.") (define-public r-parallelly (package (name "r-parallelly") - (version "1.23.0") + (version "1.24.0") (source (origin (method url-fetch) (uri (cran-uri "parallelly" version)) (sha256 (base32 - "025whcz55wj9jd73dalkbxh4l2331mqn758glr6hlf472lwf4v1p")))) + "1x04pxcyyzmg1rl9mcd7mmxglzmxgy40fmbwpy7vf5y7z15rzrp6")))) (properties `((upstream-name . "parallelly"))) (build-system r-build-system) (home-page "https://github.com/HenrikBengtsson/parallelly") @@ -13882,14 +13975,14 @@ several common set, element and attribute related tasks.") (define-public r-shinyjqui (package (name "r-shinyjqui") - (version "0.3.3") + (version "0.4.0") (source (origin (method url-fetch) (uri (cran-uri "shinyjqui" version)) (sha256 (base32 - "0n4ijxmkp8x6dwrsxwvx0zgd8b5129cmn6q6rrav38v1q5k8889x")) + "0ins0pmfis34jr0rimsp1k1aw856r3xjdnsvv8lkwqhvp58nzqah")) (snippet '(begin (delete-file "inst/www/shinyjqui.min.js"))))) @@ -14099,13 +14192,13 @@ such software by imputing dropout events.") (define-public r-gamlss-dist (package (name "r-gamlss-dist") - (version "5.1-7") + (version "5.3-2") (source (origin (method url-fetch) (uri (cran-uri "gamlss.dist" version)) (sha256 - (base32 "0nzgq3rnziy0i2zxn88hqy3pakpyin2m2csk9j3zg39si66c6wcq")))) + (base32 "1lyf2rvkplywgyhcni93k52z3b89vv86yrgl38dx3ln3436r5ahc")))) (properties `((upstream-name . "gamlss.dist"))) (build-system r-build-system) (propagated-inputs `(("r-mass" ,r-mass))) @@ -14356,14 +14449,14 @@ probabilities from a standard bivariate normal CDF.") (define-public r-lavaan (package (name "r-lavaan") - (version "0.6-7") + (version "0.6-8") (source (origin (method url-fetch) (uri (cran-uri "lavaan" version)) (sha256 (base32 - "0ks62wrwghbm1brzmqvr92h5n1295dpc87m1g3xrfx0mkdaqdcdk")))) + "18l49f1v7nrngwra4v983ic8w1d4w23ws8xf36337dq0j6809qj0")))) (build-system r-build-system) (propagated-inputs `(("r-mass" ,r-mass) @@ -15058,14 +15151,14 @@ utilities for sequence data management under the ACNUC system.") (define-public r-units (package (name "r-units") - (version "0.6-7") + (version "0.7-0") (source (origin (method url-fetch) (uri (cran-uri "units" version)) (sha256 (base32 - "1rdpbkiqcabz00fqzzs98v89v4cgvcd4pb00pwxzkq6vmwmscwrz")))) + "0kwfcrrbcwl7s50n1wp33vswqzmprh91clvakbd1jpznqpg5m3js")))) (build-system r-build-system) (inputs `(("udunits" ,udunits))) @@ -15187,14 +15280,14 @@ sampling.") (define-public r-deldir (package (name "r-deldir") - (version "0.2-9") + (version "0.2-10") (source (origin (method url-fetch) (uri (cran-uri "deldir" version)) (sha256 (base32 - "0jfwff5kk0zraspsvbk26lphl3fnrc6xmhl4690hr0a5k177ildm")))) + "08ij6zb6id71zk6gzs9z779y49y41c2gpi7p7mljnlw7py92g8k5")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) (home-page "https://cran.r-project.org/web/packages/deldir") @@ -15376,14 +15469,14 @@ genetics of complex population dynamics.") (define-public r-genetics (package (name "r-genetics") - (version "1.3.8.1.2") + (version "1.3.8.1.3") (source (origin (method url-fetch) (uri (cran-uri "genetics" version)) (sha256 (base32 - "1v0ylnia6c44v356dsmnkx6054vcxazpzsrdh3yph5ch5vg6gjrh")))) + "0lljxvz7nc6y2z303icphar2niir0i407w5cyhy2pwspd9gwkwpy")))) (build-system r-build-system) (propagated-inputs `(("r-combinat" ,r-combinat) @@ -15497,14 +15590,14 @@ generalized linear models, and quantile regression.") (define-public r-arsenal (package (name "r-arsenal") - (version "3.6.1") + (version "3.6.2") (source (origin (method url-fetch) (uri (cran-uri "arsenal" version)) (sha256 (base32 - "13ql3rb79a764ppsc1sqi8glzzkw79la0j2ahzbxgz7cz879sazy")))) + "0spm0s23xs5bm88slkz6a65mbs663qhnravwxp7rkdkr378vb5fn")))) (properties `((upstream-name . "arsenal"))) (build-system r-build-system) (propagated-inputs `(("r-knitr" ,r-knitr))) @@ -16120,14 +16213,14 @@ consists of @code{grid} grobs and viewports that can then be manipulated with (define-public r-farver (package (name "r-farver") - (version "2.0.3") + (version "2.1.0") (source (origin (method url-fetch) (uri (cran-uri "farver" version)) (sha256 (base32 - "1k75v07dsfkjra2gsgxg9s55cw3b46b1nh960kqphq7cg7gr058f")))) + "1x6ffwxqbrwlylnk995jz2a6nz2y9z59jaq0ncpni7q40w367j75")))) (build-system r-build-system) (home-page "https://github.com/thomasp85/farver") (synopsis "Vectorized color conversion and comparison") @@ -16273,14 +16366,14 @@ sets of URLs.") (define-public r-ggforce (package (name "r-ggforce") - (version "0.3.2") + (version "0.3.3") (source (origin (method url-fetch) (uri (cran-uri "ggforce" version)) (sha256 (base32 - "1lplxyq5bgx90dgaimhynpcywag1gp6vlsy7q52ay1nfc35qmkjc")))) + "0bwzjbjl678xvc2ihm80dwn9pidwafqjdab3k299csys16s3na1a")))) (build-system r-build-system) (propagated-inputs `(("r-ggplot2" ,r-ggplot2) @@ -16346,14 +16439,14 @@ databases, including ENA, PDB or ChEMBL are also accessible.") (define-public r-ggraph (package (name "r-ggraph") - (version "2.0.4") + (version "2.0.5") (source (origin (method url-fetch) (uri (cran-uri "ggraph" version)) (sha256 (base32 - "1j3xf4fsv0i0gbppdrw4yprfyk53wx6s8nvnkipi2ywbm7cr4q4w")))) + "0m4n8iw2b9jk8hcy5blg5w59zsqcpsbv27wbw598dvljpafx8sp3")))) (build-system r-build-system) (propagated-inputs `(("r-digest" ,r-digest) @@ -16383,6 +16476,32 @@ visualizations and provides the same flexible approach to building up plots layer by layer.") (license license:gpl3))) +(define-public r-gkmsvm + (package + (name "r-gkmsvm") + (version "0.81.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "gkmSVM" version)) + (sha256 + (base32 + "119g5rhc7ffyviz04r04aj5z1g6abnj3ddd01g7db505sdr6lapj")))) + (properties `((upstream-name . "gkmSVM"))) + (build-system r-build-system) + (propagated-inputs + `(("r-kernlab" ,r-kernlab) + ("r-rcpp" ,r-rcpp) + ("r-rocr" ,r-rocr) + ("r-seqinr" ,r-seqinr))) + (home-page "https://cran.r-project.org/web/packages/gkmSVM") + (synopsis "Gapped-kmer support vector machine") + (description + "This R package provides tools for training gapped-kmer SVM classifiers +for DNA and protein sequences. This package supports several sequence +kernels, including: gkmSVM, kmer-SVM, mismatch kernel and wildcard kernel.") + (license license:gpl2+))) + (define-public r-varselrf (package (name "r-varselrf") @@ -16668,6 +16787,64 @@ matrix and displays the significance level on the plot. It also includes a function for computing a matrix of correlation p-values.") (license license:gpl2))) +(define-public r-gridtext + (package + (name "r-gridtext") + (version "0.1.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "gridtext" version)) + (sha256 + (base32 + "131kw7nkfwksviwfifd2kk7lyvhxzzzv1nnj8rahkr3dik3akk61")))) + (properties `((upstream-name . "gridtext"))) + (build-system r-build-system) + (propagated-inputs + `(("r-jpeg" ,r-jpeg) + ("r-markdown" ,r-markdown) + ("r-png" ,r-png) + ("r-rcpp" ,r-rcpp) + ("r-rcurl" ,r-rcurl) + ("r-rlang" ,r-rlang) + ("r-stringr" ,r-stringr) + ("r-xml2" ,r-xml2))) + (home-page "https://wilkelab.org/gridtext/") + (synopsis "Improved text rendering support for Grid graphics") + (description + "This package provides support for rendering of formatted text using Grid +graphics. Text can be formatted via a minimal subset of Markdown, HTML, and +inline CSS directives, and it can be rendered both with and without word +wrap.") + (license license:expat))) + +(define-public r-ggtext + (package + (name "r-ggtext") + (version "0.1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "ggtext" version)) + (sha256 + (base32 + "0n19dlcys8v7myfyckr6dnq0kx79k3sbh8nwx1jsx8pgzfbi8a2b")))) + (properties `((upstream-name . "ggtext"))) + (build-system r-build-system) + (propagated-inputs + `(("r-ggplot2" ,r-ggplot2) + ("r-gridtext" ,r-gridtext) + ("r-rlang" ,r-rlang) + ("r-scales" ,r-scales))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://wilkelab.org/ggtext/") + (synopsis "Improved text rendering support for ggplot2") + (description + "This package provides a ggplot2 extension that enables the rendering of +complex formatted plot labels (titles, subtitles, facet labels, axis labels, +etc.). Text boxes with automatic word wrap are also supported.") + (license license:gpl2))) + ;; This package includes minified JavaScript files. When upgrading please ;; check that there are no new minified JavaScript files. (define-public r-flexdashboard @@ -16910,14 +17087,14 @@ regular expressions from human readable expressions") (define-public r-xmlparsedata (package (name "r-xmlparsedata") - (version "1.0.4") + (version "1.0.5") (source (origin (method url-fetch) (uri (cran-uri "xmlparsedata" version)) (sha256 (base32 - "177vfyjrqfi3wam8scpsradap1lv35yc25xq745dr7gabg116yrq")))) + "1c6bnz3ng1qw7sfip8wq3a4dn36a4d6rbja0sadn0a4pbsmk8q3n")))) (properties `((upstream-name . "xmlparsedata"))) (build-system r-build-system) (home-page "https://github.com/r-lib/xmlparsedata#readme") @@ -17338,14 +17515,14 @@ been used in the call to @code{aov}.") (define-public r-dalex (package (name "r-dalex") - (version "2.0.1") + (version "2.1.1") (source (origin (method url-fetch) (uri (cran-uri "DALEX" version)) (sha256 (base32 - "1hiknx55d91abyfj3w4a2xxin7f1q8h5k0041m7w93xjdc4kis98")))) + "1dnqsml94s648w8swsrq8spddnd4mj5pl3q6xxr917w6a1jxgyfz")))) (properties `((upstream-name . "DALEX"))) (build-system r-build-system) (propagated-inputs @@ -17602,14 +17779,14 @@ LargeVis method of Tang et al. (2016) is also provided.") (define-public r-kableextra (package (name "r-kableextra") - (version "1.3.1") + (version "1.3.4") (source (origin (method url-fetch) (uri (cran-uri "kableExtra" version)) (sha256 (base32 - "1zixccpgy9x95fgzfgxc43pm020c80c21flch71klc3zzzsq53gf")))) + "1c5vzy95cbz36jwyssr927qicrayifinv861rvnmg4nghb1gl7q9")))) (properties `((upstream-name . "kableExtra"))) (build-system r-build-system) (propagated-inputs @@ -17623,6 +17800,7 @@ LargeVis method of Tang et al. (2016) is also provided.") ("r-rvest" ,r-rvest) ("r-scales" ,r-scales) ("r-stringr" ,r-stringr) + ("r-svglite" ,r-svglite) ("r-viridislite" ,r-viridislite) ("r-webshot" ,r-webshot) ("r-xml2" ,r-xml2))) @@ -17990,6 +18168,41 @@ stress majorization by Gansner et al. (2004) emphasize hidden group structures in networks or focus on specific nodes.") (license license:expat))) +(define-public r-terra + (package + (name "r-terra") + (version "1.1-4") + (source + (origin + (method url-fetch) + (uri (cran-uri "terra" version)) + (sha256 + (base32 + "1vsh55sq56shc8s2vmkl27yvrdbrbn3l6jrigqf2hmvppkb2jsbg")))) + (properties `((upstream-name . "terra"))) + (build-system r-build-system) + (inputs + `(("gdal" ,gdal) + ("geos" ,geos) + ("proj" ,proj) + ("sqlite" ,sqlite) ; needed for proj + ("zlib" ,zlib))) + (propagated-inputs + `(("r-raster" ,r-raster) + ("r-rcpp" ,r-rcpp))) + (native-inputs + `(("pkg-config" ,pkg-config))) + (home-page "https://rspatial.org/terra") + (synopsis "Spatial data analysis") + (description + "This package provides methods for spatial data analysis, especially +raster data. The included methods allow for low-level data manipulation as +well as high-level global, local, zonal, and focal computation. The predict +and interpolate methods facilitate the use of regression type (interpolation, +machine learning) models for spatial prediction. Processing of very large +files is supported.") + (license license:gpl3+))) + (define-public r-tidygraph (package (name "r-tidygraph") @@ -18083,14 +18296,14 @@ in pipelines.") (define-public r-parameters (package (name "r-parameters") - (version "0.11.0") + (version "0.12.0") (source (origin (method url-fetch) (uri (cran-uri "parameters" version)) (sha256 (base32 - "020k3vxnp0vjrlkcxx5vj30vag474hw48zxzw9315whsq4hhhbqc")))) + "0dfqn4l4qmlpwmdva2ahyhlngkzdm0sgiirbdrf3mbbw52bhlmpm")))) (properties `((upstream-name . "parameters"))) (build-system r-build-system) (propagated-inputs @@ -18168,14 +18381,14 @@ atmospheric physics.") (define-public r-lifecycle (package (name "r-lifecycle") - (version "0.2.0") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "lifecycle" version)) (sha256 (base32 - "0912865c6675fsblrfdk6s568krsj1x8qbk1kipy7m05xs6nwx19")))) + "13hgxk93q9387s8dnqpm8dfx610y0pr76khqksj4kbgj2fr4lcq3")))) (properties `((upstream-name . "lifecycle"))) (build-system r-build-system) (propagated-inputs @@ -19403,14 +19616,14 @@ models.") (define-public r-gamlss (package (name "r-gamlss") - (version "5.2-0") + (version "5.3-1") (source (origin (method url-fetch) (uri (cran-uri "gamlss" version)) (sha256 (base32 - "1q82md0439si0n7vqbbbdk45sjr0ad7i8mgrn3kwnr4h213pb4nk")))) + "1ngf6g4zixwm6ni5r0fs0f6132xd2f2a6mlski9hlqnvvwb46iwr")))) (properties `((upstream-name . "gamlss"))) (build-system r-build-system) (propagated-inputs @@ -20691,14 +20904,14 @@ number embedded in the file rather than the file extension.") (define-public r-imager (package (name "r-imager") - (version "0.42.3") + (version "0.42.7") (source (origin (method url-fetch) (uri (cran-uri "imager" version)) (sha256 (base32 - "1wxvbv803222gjrf1ys6a349xlnmmdw3kqgi93piq9gq7lahihvg")))) + "1dq0rblnrmnk689bcdmml179gk9lff8x92s2npkjllgjq5q2vfpd")))) (properties `((upstream-name . "imager"))) (build-system r-build-system) (inputs @@ -21679,14 +21892,14 @@ Raftery, Appl.Statistics, 1989); it includes inference and basic methods.") (define-public r-forecast (package (name "r-forecast") - (version "8.13") + (version "8.14") (source (origin (method url-fetch) (uri (cran-uri "forecast" version)) (sha256 (base32 - "0vrql5d4v28890np2m6ws1nr1fcl6frs1bz74vfkihkixcmkl3j9")))) + "12bfw029xb1dndcjyn2r7a51i7hnkkbdilp69k97sz2v8b7v1y3s")))) (properties `((upstream-name . "forecast"))) (build-system r-build-system) (propagated-inputs @@ -21765,14 +21978,14 @@ and Euclidean distance is particularly fast.") (define-public r-isocodes (package (name "r-isocodes") - (version "2020.12.04") + (version "2021.02.24") (source (origin (method url-fetch) (uri (cran-uri "ISOcodes" version)) (sha256 (base32 - "18373rkhmwm7y2drvfbhrxkqw9d23avf0ndvh0fg00z4djvddkjx")))) + "19irnn2yi1bzhf03g666la84kj8040f5913kfrmd16dfnjy6j9qm")))) (properties `((upstream-name . "ISOcodes"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=ISOcodes") @@ -22241,14 +22454,14 @@ Complete access to optimized C functions is made available with (define-public r-openmx (package (name "r-openmx") - (version "2.18.1") + (version "2.19.1") (source (origin (method url-fetch) (uri (cran-uri "OpenMx" version)) (sha256 (base32 - "0gyjps0l3ig90piccgd04s63cz65kk5i5l9iyakps4bv27h1lzwm")))) + "0fbndmwb3krypsavgm3blqkhh8blmi3p186yxmvgv3a9m6r154rj")))) (properties `((upstream-name . "OpenMx"))) (build-system r-build-system) (propagated-inputs @@ -22547,14 +22760,14 @@ Latent regression models and plausible value imputation are also supported.") (define-public r-erm (package (name "r-erm") - (version "1.0-1") + (version "1.0-2") (source (origin (method url-fetch) (uri (cran-uri "eRm" version)) (sha256 (base32 - "0njqzznnhnkvalmhiq5yq1w7gwp2myki5cv61w42ydvd27hdyyg9")))) + "0smym010kswc5vx90qr3x1vl16xj1x1i54rvrj006dc4agc1vmlk")))) (properties `((upstream-name . "eRm"))) (build-system r-build-system) (propagated-inputs @@ -23185,18 +23398,16 @@ Encyclopedia of Integer Sequences} (OEIS) in the function help page.") (define-public r-isoband (package (name "r-isoband") - (version "0.2.3") + (version "0.2.4") (source (origin (method url-fetch) (uri (cran-uri "isoband" version)) (sha256 (base32 - "1zkzdc39dpw2z59bjck27nimz9a2vskmw0f7wb17s53dvy7k3lzr")))) + "0z1qpxcl8b6fi691fbdr3vrb19mn4pas1iff62zl1bafzbdvpmcn")))) (properties `((upstream-name . "isoband"))) (build-system r-build-system) - (propagated-inputs - `(("r-testthat" ,r-testthat))) (native-inputs `(("r-knitr" ,r-knitr))) (home-page "https://github.com/wilkelab/isoband") @@ -23907,14 +24118,14 @@ vignette for more information and examples.") (define-public r-brms (package (name "r-brms") - (version "2.14.4") + (version "2.15.0") (source (origin (method url-fetch) (uri (cran-uri "brms" version)) (sha256 (base32 - "0mzwihhgmn405l6zq11a180q4k3chggj9qj0j7q838b9vrszg59j")))) + "0byc3fyvf9qbvvgwf55ih5d4br1nnxlbaidq9fvr11bmv38h25y1")))) (properties `((upstream-name . "brms"))) (build-system r-build-system) (propagated-inputs @@ -24603,6 +24814,33 @@ diagonals. This package allows you to compute the tensor product of arrays.") which may also be useful for other purposes.") (license license:gpl2+))) +(define-public r-spatstat-sparse + (package + (name "r-spatstat-sparse") + (version "1.2-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "spatstat.sparse" version)) + (sha256 + (base32 + "1w312q7gxzchigxxzk9akscdsz66j5085lgjryamschjgp4f8yk2")))) + (properties + `((upstream-name . "spatstat.sparse"))) + (build-system r-build-system) + (propagated-inputs + `(("r-abind" ,r-abind) + ("r-matrix" ,r-matrix) + ("r-spatstat-utils" ,r-spatstat-utils) + ("r-tensor" ,r-tensor))) + (home-page "http://spatstat.org/") + (synopsis "Sparse three-dimensional arrays and linear algebra utilities") + (description + "This package defines sparse three-dimensional arrays and supports +standard operations on them. The package also includes utility functions for +matrix calculations that are common in statistics, such as quadratic forms.") + (license license:gpl2+))) + (define-public r-spatstat-data (package (name "r-spatstat-data") @@ -24626,31 +24864,111 @@ which may also be useful for other purposes.") package.") (license license:gpl2+))) -(define-public r-spatstat +(define-public r-spatstat-geom (package - (name "r-spatstat") - (version "1.64-1") + (name "r-spatstat-geom") + (version "1.65-5") (source (origin (method url-fetch) - (uri (cran-uri "spatstat" version)) + (uri (cran-uri "spatstat.geom" version)) (sha256 (base32 - "06jmxfs9kz9qqi3ichfgn8dglwb87kq2nl578p83za5psv8cfgya")))) - (properties `((upstream-name . "spatstat"))) + "0g0m5b3nbzpyblbp77n56k6aiw3fn23jkk72h9fhqlg1ydn2fzpk")))) + (properties `((upstream-name . "spatstat.geom"))) + (build-system r-build-system) + (propagated-inputs + `(("r-deldir" ,r-deldir) + ("r-polyclip" ,r-polyclip) + ("r-spatstat-data" ,r-spatstat-data) + ("r-spatstat-sparse" ,r-spatstat-sparse) + ("r-spatstat-utils" ,r-spatstat-utils))) + (home-page "http://spatstat.org/") + (synopsis "Geometrical functionality of the spatstat package") + (description + "This is a subset of the original spatstat package, containing the +user-level code from spatstat which performs geometrical operations, except +for the geometry of linear networks.") + (license license:gpl2+))) + +(define-public r-spatstat-core + (package + (name "r-spatstat-core") + (version "1.65-5") + (source + (origin + (method url-fetch) + (uri (cran-uri "spatstat.core" version)) + (sha256 + (base32 + "0wq61sd53hwyk3fzjdc2prrr66n67zbwb5i3ii7kvyhfwx0xikm3")))) + (properties `((upstream-name . "spatstat.core"))) (build-system r-build-system) (propagated-inputs `(("r-abind" ,r-abind) - ("r-deldir" ,r-deldir) ("r-goftest" ,r-goftest) ("r-matrix" ,r-matrix) ("r-mgcv" ,r-mgcv) ("r-nlme" ,r-nlme) - ("r-polyclip" ,r-polyclip) ("r-rpart" ,r-rpart) ("r-spatstat-data" ,r-spatstat-data) + ("r-spatstat-geom" ,r-spatstat-geom) + ("r-spatstat-sparse" ,r-spatstat-sparse) ("r-spatstat-utils" ,r-spatstat-utils) ("r-tensor" ,r-tensor))) + (home-page "http://spatstat.org/") + (synopsis "Core functionality of the spatstat package") + (description + "This is a subset of the original spatstat package, containing all of the +user-level code from spatstat, except for the code for linear networks.") + (license license:gpl2+))) + +(define-public r-spatstat-linnet + (package + (name "r-spatstat-linnet") + (version "1.65-3") + (source + (origin + (method url-fetch) + (uri (cran-uri "spatstat.linnet" version)) + (sha256 + (base32 + "1y088r26h5yv006ydgcb4iwpvnc7ql857gky0hbi7xqqciqr8wdv")))) + (properties + `((upstream-name . "spatstat.linnet"))) + (build-system r-build-system) + (propagated-inputs + `(("r-matrix" ,r-matrix) + ("r-spatstat-core" ,r-spatstat-core) + ("r-spatstat-data" ,r-spatstat-data) + ("r-spatstat-geom" ,r-spatstat-geom) + ("r-spatstat-utils" ,r-spatstat-utils))) + (home-page "http://spatstat.org/") + (synopsis "Linear networks functionality of the spatstat package") + (description + "This is a subset of the spatstat package, containing its functionality +for spatial data on a linear network.") + (license license:gpl2+))) + +(define-public r-spatstat + (package + (name "r-spatstat") + (version "2.0-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "spatstat" version)) + (sha256 + (base32 + "1xq11ijc0d0lbixxb3wnvyr4gplfj2d2i64ynsa089xd525zzzbw")))) + (properties `((upstream-name . "spatstat"))) + (build-system r-build-system) + (propagated-inputs + `(("r-spatstat-core" ,r-spatstat-core) + ("r-spatstat-data" ,r-spatstat-data) + ("r-spatstat-geom" ,r-spatstat-geom) + ("r-spatstat-linnet" ,r-spatstat-linnet) + ("r-spatstat-utils" ,r-spatstat-utils))) (home-page "http://www.spatstat.org") (synopsis "Spatial Point Pattern analysis, model-fitting, simulation, tests") (description @@ -24906,26 +25224,36 @@ censored data.") (define-public r-flexsurv (package (name "r-flexsurv") - (version "1.1.1") + (version "2.0") (source (origin (method url-fetch) (uri (cran-uri "flexsurv" version)) (sha256 (base32 - "0x7p1rv51pplfyyzcg63ssb8z56mig7y0363hkr0219w3cvyq9nr")))) + "0vshsijqlzsz0xh426vsswpai1v5c990ggyniqqzsjbg3mn8dbl9")))) (properties `((upstream-name . "flexsurv"))) (build-system r-build-system) (propagated-inputs - `(("r-desolve" ,r-desolve) + `(("r-assertthat" ,r-assertthat) + ("r-desolve" ,r-desolve) + ("r-dplyr" ,r-dplyr) + ("r-generics" ,r-generics) + ("r-magrittr" ,r-magrittr) + ("r-matrix" ,r-matrix) ("r-mstate" ,r-mstate) ("r-muhaz" ,r-muhaz) ("r-mvtnorm" ,r-mvtnorm) + ("r-numderiv" ,r-numderiv) + ("r-purrr" ,r-purrr) ("r-quadprog" ,r-quadprog) ("r-rcpp" ,r-rcpp) + ("r-rlang" ,r-rlang) + ("r-rstpm2" ,r-rstpm2) ("r-survival" ,r-survival) ("r-tibble" ,r-tibble) - ("r-tidyr" ,r-tidyr))) + ("r-tidyr" ,r-tidyr) + ("r-tidyselect" ,r-tidyselect))) (native-inputs `(("r-knitr" ,r-knitr))) (home-page "https://github.com/chjackson/flexsurv-dev") @@ -25091,14 +25419,14 @@ p-value approximations.") (define-public r-survminer (package (name "r-survminer") - (version "0.4.8") + (version "0.4.9") (source (origin (method url-fetch) (uri (cran-uri "survminer" version)) (sha256 (base32 - "1niysd89mxb2a6ncvzm1s6xgfvq3psba65af0whh2p56r2hwrwff")))) + "0byh0wxdbjfwdrzsnqv4xlmnik6lj0vkkzfxy7lssk8dv5zmj7nz")))) (properties `((upstream-name . "survminer"))) (build-system r-build-system) (propagated-inputs @@ -25106,6 +25434,7 @@ p-value approximations.") ("r-dplyr" ,r-dplyr) ("r-ggplot2" ,r-ggplot2) ("r-ggpubr" ,r-ggpubr) + ("r-ggtext" ,r-ggtext) ("r-gridextra" ,r-gridextra) ("r-magrittr" ,r-magrittr) ("r-maxstat" ,r-maxstat) @@ -25274,14 +25603,14 @@ more.") (define-public r-workflows (package (name "r-workflows") - (version "0.2.1") + (version "0.2.2") (source (origin (method url-fetch) (uri (cran-uri "workflows" version)) (sha256 (base32 - "1mk0pnmpqlhf143mvj9rwvjrrshirz6s83s5hbfalhnyw7hzkfb9")))) + "19ipcxx4qfz28cjkgr1vny03yhmbd3m2v64v30gk5pf73nazvmaz")))) (properties `((upstream-name . "workflows"))) (build-system r-build-system) (propagated-inputs @@ -25292,7 +25621,8 @@ more.") ("r-hardhat" ,r-hardhat) ("r-parsnip" ,r-parsnip) ("r-rlang" ,r-rlang) - ("r-tidyselect" ,r-tidyselect))) + ("r-tidyselect" ,r-tidyselect) + ("r-vctrs" ,r-vctrs))) (native-inputs `(("r-knitr" ,r-knitr))) (home-page "https://github.com/tidymodels/workflows") @@ -25423,14 +25753,14 @@ sliding windows are to be created.") (define-public r-rsample (package (name "r-rsample") - (version "0.0.8") + (version "0.0.9") (source (origin (method url-fetch) (uri (cran-uri "rsample" version)) (sha256 (base32 - "1psmxk16d4bz1v05x0gb9hn4brkdjxw8hjbxmj62snichnix3q3i")))) + "03qwsvylgmj2a2h764mzy0x57pgzmvjvl0ypmbn4lcf912bvrd2c")))) (properties `((upstream-name . "rsample"))) (build-system r-build-system) (propagated-inputs @@ -25438,7 +25768,6 @@ sliding windows are to be created.") ("r-ellipsis" ,r-ellipsis) ("r-furrr" ,r-furrr) ("r-generics" ,r-generics) - ("r-modeldata" ,r-modeldata) ("r-purrr" ,r-purrr) ("r-rlang" ,r-rlang) ("r-slider" ,r-slider) @@ -25458,14 +25787,14 @@ different types of resampling objects (e.g. bootstrap, cross-validation).") (define-public r-dicedesign (package (name "r-dicedesign") - (version "1.8-1") + (version "1.9") (source (origin (method url-fetch) (uri (cran-uri "DiceDesign" version)) (sha256 (base32 - "11s1m543kxd6gv4amh8z6pph1n67sj9sfwm6hjy83wfs65syf5vp")))) + "1a8ixa65xgyfri03cviic8qi2plbhdyz8m02bwif8w94w0q3ghlk")))) (properties `((upstream-name . "DiceDesign"))) (build-system r-build-system) (home-page "http://dice.emse.fr/") @@ -25510,14 +25839,14 @@ for creating, simulating, or validating values for such parameters.") (define-public r-tune (package (name "r-tune") - (version "0.1.2") + (version "0.1.3") (source (origin (method url-fetch) (uri (cran-uri "tune" version)) (sha256 (base32 - "0ja7rjkjj88v3ngrc6izcz2qh9qv4s8abgcafmvx2ihgz99hds37")))) + "05r5jzg96g2z10a2w4w8wq1ysfaxr91acwrvn75pmcy4rmixf293")))) (properties `((upstream-name . "tune"))) (build-system r-build-system) (propagated-inputs @@ -25529,7 +25858,6 @@ for creating, simulating, or validating values for such parameters.") ("r-ggplot2" ,r-ggplot2) ("r-glue" ,r-glue) ("r-gpfit" ,r-gpfit) - ("r-hardhat" ,r-hardhat) ("r-parsnip" ,r-parsnip) ("r-purrr" ,r-purrr) ("r-recipes" ,r-recipes) @@ -25876,6 +26204,32 @@ statistical analysis that share the underlying design philosophy, grammar, and data structures of the tidyverse.") (license license:gpl3))) +(define-public r-lsa + (package + (name "r-lsa") + (version "0.73.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "lsa" version)) + (sha256 + (base32 + "1a33irqa6qvbc02z12rgbgv8kxq2gmahy7j5bg8b23lvvaxif06b")))) + (properties `((upstream-name . "lsa"))) + (build-system r-build-system) + (propagated-inputs + `(("r-snowballc" ,r-snowballc))) + (home-page "https://cran.r-project.org/package=lsa") + (synopsis "Latent semantic analysis") + (description + "The basic idea of latent semantic analysis (LSA) is, that text do have a +higher order (=latent semantic) structure which, however, is obscured by word +usage (e.g. through the use of synonyms or polysemy). By using conceptual +indices that are derived statistically via a truncated singular value +decomposition (a two-mode factor analysis) over a given document-term matrix, +this variability problem can be overcome.") + (license license:gpl2+))) + (define-public r-mlecens (package (name "r-mlecens") @@ -26163,6 +26517,18 @@ other R users.") "1mp3py00bmzj4541d8ry5sfzkpfzvnl9dpa8n4qhakd13dl30xdn")))) (properties `((upstream-name . "Seurat"))) (build-system r-build-system) + ;; This is needed because r-spatstat has been split up and there has + ;; been no new release of Seurat since then. + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'fix-spatstat-import + (lambda _ + (substitute* "NAMESPACE" + (("importFrom\\(spatstat,markvario\\)") + "importFrom(spatstat.core,markvario)") + (("importFrom\\(spatstat,ppp\\)") + "importFrom(spatstat.geom,ppp)"))))))) (propagated-inputs `(("r-cluster" ,r-cluster) ("r-cowplot" ,r-cowplot) @@ -26548,13 +26914,13 @@ package also supersedes the package @code{BBmisc}.") (define-public r-paradox (package (name "r-paradox") - (version "0.7.0") + (version "0.7.1") (source (origin (method url-fetch) (uri (cran-uri "paradox" version)) (sha256 (base32 - "1fz6sdwvvifm4qbmwgm27dil278mswvcfw8bbsvli5v4l1ghw8kj")))) + "1difp0bzsfxcmbm1snahh3i6417k1a2w4mnjx65p20n2yiclmrgs")))) (build-system r-build-system) (propagated-inputs `(("r-backports" ,r-backports) @@ -26573,13 +26939,13 @@ implemented as @code{R6} classes.") (define-public r-mlr3 (package (name "r-mlr3") - (version "0.10.0") + (version "0.11.0") (source (origin (method url-fetch) (uri (cran-uri "mlr3" version)) (sha256 (base32 - "1arqijbbmhv57mj8kyq30zxykah83ab1d1c7gs0cxs0xhfwln66g")))) + "0qh9vdac1als2123wf51bwa7spdqk33iydlawi5n5dpci892iahl")))) (build-system r-build-system) (propagated-inputs `(("r-r6" ,r-r6) @@ -26592,7 +26958,9 @@ implemented as @code{R6} classes.") ("r-mlbench" ,r-mlbench) ("r-mlr3measures" ,r-mlr3measures) ("r-mlr3misc" ,r-mlr3misc) + ("r-palmerpenguins" ,r-palmerpenguins) ("r-paradox" ,r-paradox) + ("r-parallelly" ,r-parallelly) ("r-uuid" ,r-uuid))) (home-page "https://mlr3.mlr-org.com/") (synopsis "Machine Learning in R - Next Generation") @@ -26633,14 +27001,14 @@ vector machines, and gradient boosting.") (define-public r-bbotk (package (name "r-bbotk") - (version "0.3.0") + (version "0.3.1") (source (origin (method url-fetch) (uri (cran-uri "bbotk" version)) (sha256 (base32 - "0kbjbwwq1fdfpl4xzy08hz4qvhjjchvz58icxq0dlbsmdyqwhwv0")))) + "1f29wxnxr73c4yp5afk05jqggpm7k1z8wiak8xsyw68h7xflq550")))) (properties `((upstream-name . "bbotk"))) (build-system r-build-system) (propagated-inputs @@ -26663,13 +27031,13 @@ annealing.") (define-public r-mlr3tuning (package (name "r-mlr3tuning") - (version "0.6.0") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "mlr3tuning" version)) (sha256 (base32 - "0kxf9wl1jnwyrj2zfmiz12w2594407y44m0xxwp9b2lrwxk31wm7")))) + "16rvsf0jf06yvalydbs7zzn2994hvvyfw975ydiyv3wy1qzgr8bv")))) (build-system r-build-system) (propagated-inputs `(("r-bbotk" ,r-bbotk) @@ -26962,14 +27330,14 @@ clusterings as resolution increases.") (define-public r-textshaping (package (name "r-textshaping") - (version "0.3.0") + (version "0.3.2") (source (origin (method url-fetch) (uri (cran-uri "textshaping" version)) (sha256 (base32 - "053pbw45by96q62kjfnyc3d0ssar9svssrdqy6a09kdmdh75xdar")))) + "0fqh4z505b2qriqcj70g2hhdgiawd3w2rs9rqxdwizz5vk8jjygx")))) (properties `((upstream-name . "textshaping"))) (build-system r-build-system) (inputs @@ -26995,14 +27363,14 @@ the font tool-set provided by the @code{systemfonts} package.") (define-public r-ragg (package (name "r-ragg") - (version "0.4.1") + (version "1.1.1") (source (origin (method url-fetch) (uri (cran-uri "ragg" version)) (sha256 (base32 - "0443dhfi7bjfpap041vrnslw3ql3vpsxx18raz2w9nfdb7id8lsc")))) + "0nh1xxrxgdbq9anzkc6k3n519czp9hqyiizakm3m2gl4l4w0vp0q")))) (properties `((upstream-name . "ragg"))) (build-system r-build-system) (inputs @@ -27101,3 +27469,814 @@ from a source package. @code{pkgdown} converts your documentation, vignettes, README file, and more to HTML making it easy to share information about your package online.") (license license:expat))) + +(define-public r-prereg + (package + (name "r-prereg") + (version "0.5.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "prereg" version)) + (sha256 + (base32 + "0bck13iiaxwpqh0rd45mp1s5d8z62ggg0wa7rmyi8a65aywiypsi")))) + (properties `((upstream-name . "prereg"))) + (build-system r-build-system) + (propagated-inputs + `(("r-rmarkdown" ,r-rmarkdown))) + (home-page "https://github.com/crsh/prereg") + (synopsis + "R Markdown Templates to preregister Scientific Studies") + (description + "This package provides a collection of templates to author +preregistration documents for scientific studies in PDF format.") + (license license:gpl3))) + +(define-public r-ez + (package + (name "r-ez") + (version "4.4-0") + (source + (origin + (method url-fetch) + (uri (cran-uri "ez" version)) + (sha256 + (base32 + "0a58s94x576dfz7wcbivrr2hmdh5x1vy16zwkqp9fmdzqx38pagq")))) + (properties `((upstream-name . "ez"))) + (build-system r-build-system) + (propagated-inputs + `(("r-car" ,r-car) + ("r-ggplot2" ,r-ggplot2) + ("r-lme4" ,r-lme4) + ("r-mass" ,r-mass) + ("r-matrix" ,r-matrix) + ("r-mgcv" ,r-mgcv) + ("r-plyr" ,r-plyr) + ("r-reshape2" ,r-reshape2) + ("r-scales" ,r-scales) + ("r-stringr" ,r-stringr))) + (home-page "https://github.com/mike-lawrence/ez") + (synopsis "Easy Analysis and Visualization of Factorial Experiments") + (description + "Facilitates easy analysis of factorial experiments, including purely +within-Ss designs (a.k.a. \"repeated measures\"), purely between-Ss designs, +and mixed within-and-between-Ss designs. The functions in this package aim to +provide simple, intuitive and consistent specification of data analysis and +visualization. Visualization functions also include design visualization for +pre-analysis data auditing, and correlation matrix visualization. Finally, +this package includes functions for non-parametric analysis, including +permutation tests and bootstrap resampling. The bootstrap function obtains +predictions either by cell means or by more advanced/powerful mixed effects +models, yielding predictions and confidence intervals that may be easily +visualized at any level of the experiment's design.") + (license license:gpl2+))) + +(define-public r-qdapregex + (package + (name "r-qdapregex") + (version "0.7.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "qdapRegex" version)) + (sha256 + (base32 + "1xa8q1way3gjadrjh3mv3xr4c6b4h16nd2c6lgl969difplpfz9p")))) + (properties `((upstream-name . "qdapRegex"))) + (build-system r-build-system) + (propagated-inputs `(("r-stringi" ,r-stringi))) + (home-page + "https://trinker.github.com/qdapRegex/") + (synopsis + "Regular Expression Removal, Extraction, and Replacement Tools") + (description + "This package provides a collection of regular expression tools +associated with the @code{qdap} package that may be useful outside of the +context of discourse analysis. Tools include removal/extraction/replacement of +abbreviations, dates, dollar amounts, email addresses, hash tags, numbers, +percentages, citations, person tags, phone numbers, times, and zip codes.") + (license license:gpl2))) + +(define-public r-mgsub + (package + (name "r-mgsub") + (version "1.7.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "mgsub" version)) + (sha256 + (base32 + "02l1b96zv36ia0c97wgcwfhi037mbn3wy9c64hcw0n0w67yj77rr")))) + (properties `((upstream-name . "mgsub"))) + (build-system r-build-system) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://cran.r-project.org/package=mgsub") + (synopsis + "Safe, Multiple, Simultaneous String Substitution") + (description + "Designed to enable simultaneous substitution in strings in a safe +fashion. Safe means it does not rely on placeholders (which can cause errors +in same length matches).") + (license license:expat))) + +(define-public r-textshape + (package + (name "r-textshape") + (version "1.7.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "textshape" version)) + (sha256 + (base32 + "02111kj3kka84mpx7s19bjna9cas8diw5fxz51v5ggz0ldswa5pa")))) + (properties `((upstream-name . "textshape"))) + (build-system r-build-system) + (propagated-inputs + `(("r-data-table" ,r-data-table) + ("r-slam" ,r-slam) + ("r-stringi" ,r-stringi))) + (home-page "http://github.com/trinker/textshape") + (synopsis "Tools for Reshaping Text") + (description + "Tools that can be used to reshape and restructure text data.") + (license license:gpl2))) + +(define-public r-syuzhet + (package + (name "r-syuzhet") + (version "1.0.6") + (source + (origin + (method url-fetch) + (uri (cran-uri "syuzhet" version)) + (sha256 + (base32 + "16iccqdbw02iw82nah6kwz3gwfghi864j2y698n4b9dyc386ijzv")))) + (properties `((upstream-name . "syuzhet"))) + (build-system r-build-system) + (propagated-inputs + `(("r-dplyr" ,r-dplyr) + ("r-dtt" ,r-dtt) + ("r-nlp" ,r-nlp) + ("r-rlang" ,r-rlang) + ("r-textshape" ,r-textshape) + ("r-tidyr" ,r-tidyr) + ("r-zoo" ,r-zoo))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/mjockers/syuzhet") + (synopsis + "Extracts Sentiment and Sentiment-Derived Plot Arcs from Text") + (description + "Extracts sentiment and sentiment-derived plot arcs from text using a +variety of sentiment dictionaries conveniently packaged for consumption by R +users. Implemented dictionaries include @dfn{syuzhet} (default) developed in the +Nebraska Literary Lab, @dfn{afinn} developed by Finn Arup Nielsen, @dfn{bing} +developed by Minqing Hu and Bing Liu, and @dfn{nrc} developed by Mohammad, Saif +M. and Turney, Peter D. Applicable references are available in +@file{README.md} and in the documentation for the @code{get_sentiment} +function. The package also provides a hack for implementing Stanford's coreNLP +sentiment parser. The package provides several methods for plot arc +normalization.") + (license license:gpl3))) + +(define-public r-lexicon + (package + (name "r-lexicon") + (version "1.2.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "lexicon" version)) + (sha256 + (base32 + "0x7rscsh6par2lj11sby7bmz41cxn63iiw51lgh29z09cg8j606c")))) + (properties `((upstream-name . "lexicon"))) + (build-system r-build-system) + (propagated-inputs + `(("r-data-table" ,r-data-table) + ("r-syuzhet" ,r-syuzhet))) + (home-page "https://github.com/trinker/lexicon") + (synopsis "Lexicons for Text Analysis") + (description + "This package provides a collection of lexical hash tables, dictionaries, +and word lists.") + (license license:gpl3))) + +(define-public r-english + (package + (name "r-english") + (version "1.2-5") + (source + (origin + (method url-fetch) + (uri (cran-uri "english" version)) + (sha256 + (base32 + "0d6rin40wy2y6k75x8d5qvf03rfy139f309wrl8xwbdb1h8fjkd1")))) + (properties `((upstream-name . "english"))) + (build-system r-build-system) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://cran.r-project.org/package=english") + (synopsis "Translate Integers into English") + (description + "Allow numbers to be presented in an English language version, one, two, +three, ... Ordinals are also available, first, second, third, ... and +indefinite article choice, \"a\" or \"an\".") + (license license:gpl2))) + +(define-public r-textclean + (package + (name "r-textclean") + (version "0.9.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "textclean" version)) + (sha256 + (base32 + "0kgjh6c4f14qkjc4fds7q7rpf4nkma3p0igm54fplmm3p853nvrz")))) + (properties `((upstream-name . "textclean"))) + (build-system r-build-system) + (propagated-inputs + `(("r-data-table" ,r-data-table) + ("r-english" ,r-english) + ("r-glue" ,r-glue) + ("r-lexicon" ,r-lexicon) + ("r-mgsub" ,r-mgsub) + ("r-qdapregex" ,r-qdapregex) + ("r-stringi" ,r-stringi) + ("r-textshape" ,r-textshape))) + (home-page + "https://github.com/trinker/textclean") + (synopsis "Text Cleaning Tools") + (description + "Tools to clean and process text. Tools are geared at checking for +substrings that are not optimal for analysis and replacing or removing them +(normalizing) with more analysis friendly substrings (see Sproat, Black, Chen, +Kumar, Ostendorf, & Richards (2001) @url{doi:10.1006/csla.2001.0169}) or +extracting them into new variables. For example, emoticons are often used in +text but not always easily handled by analysis algorithms. The +@code{replace_emoticon()} function replaces emoticons with word equivalents.") + (license license:gpl2))) + +(define-public r-striprtf + (package + (name "r-striprtf") + (version "0.5.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "striprtf" version)) + (sha256 + (base32 + "1ra6aalalig6drsj26z9s24lmb10zssagqrvgqqi4358zbm8gwcd")))) + (properties `((upstream-name . "striprtf"))) + (build-system r-build-system) + (propagated-inputs + `(("r-magrittr" ,r-magrittr) + ("r-rcpp" ,r-rcpp) + ("r-stringr" ,r-stringr))) + (home-page "https://github.com/kota7/striprtf") + (synopsis "Extract Text from RTF File") + (description + "Extracts plain text from @dfn{Rich Text Format} (RTF) file.") + (license license:expat))) + +(define-public r-ndjson + (package + (name "r-ndjson") + (version "0.8.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "ndjson" version)) + (sha256 + (base32 + "0lvzbgfi1sg4kya1mvv67z14qk3vz9q57x22qh57xq8ampdkg812")) + (modules '((guix build utils))) + (snippet + '(begin + ;; unvendor gzstream + (for-each delete-file '("src/gzstream.cpp" "src/gzstream.h")) + #t)))) + (properties `((upstream-name . "ndjson"))) + (build-system r-build-system) + (arguments + '(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'use-system-gzstream + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "src/Makevars" + (("PKG_LIBS = " all) + (string-append all "-lgzstream "))) + #t))))) + (inputs `(("zlib" ,zlib) ("gzstream" ,gzstream))) + (propagated-inputs + `(("r-data-table" ,r-data-table) + ("r-rcpp" ,r-rcpp) + ("r-tibble" ,r-tibble))) + (home-page "https://gitlab.com/hrbrmstr/ndjson") + (synopsis + "Wicked-Fast @dfn{Streaming JSON} (ndjson) Reader") + (description + "@dfn{Streaming JSON} (ndjson) has one JSON record per-line and many +modern ndjson files contain large numbers of records. These constructs may not +be columnar in nature, but it is often useful to read in these files and +\"flatten\" the structure out to enable working with the data in an R +@code{data.frame}-like context. Functions are provided that make it possible +to read in plain ndjson files or compressed (@code{gz}) ndjson files and either +validate the format of the records or create \"flat\" @code{data.table} +structures from them.") + (license license:expat))) + +(define-public r-streamr + (package + (name "r-streamr") + (version "0.4.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "streamR" version)) + (sha256 + (base32 + "1clx3b0j2515r1nmnl6ki7qw5n54q3x2jvqv3zrc00kq71mlj7ix")))) + (properties `((upstream-name . "streamR"))) + (build-system r-build-system) + (propagated-inputs + `(("r-ndjson" ,r-ndjson) + ("r-rcurl" ,r-rcurl) + ("r-rjson" ,r-rjson))) + (home-page + "https://cran.r-project.org/package=streamR") + (synopsis + "Access to Twitter Streaming API via R") + (description + "This package provides functions to access Twitter's filter, sample, and +user streams, and to parse the output into data frames.") + (license license:gpl2))) + +(define-public r-readods + (package + (name "r-readods") + (version "1.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "readODS" version)) + (sha256 + (base32 + "1hi217ab7hp15jsbzi5ak57cqf8jn2rv78bnn74q72gn9mrfra7n")))) + (properties `((upstream-name . "readODS"))) + (build-system r-build-system) + (propagated-inputs + `(("r-cellranger" ,r-cellranger) + ("r-readr" ,r-readr) + ("r-stringi" ,r-stringi) + ("r-xml2" ,r-xml2))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://cran.r-project.org/package=readODS") + (synopsis "Read and Write ODS Files") + (description + "Import @dfn{OpenDocument Spreadsheet} (ODS) into R as a data frame. +Also support writing data frame into ODS file.") + (license license:gpl3))) + +(define-public r-qpdf + (package + (name "r-qpdf") + (version "1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "qpdf" version)) + (sha256 + (base32 + "03lnfncw8qd1fwfyqh1mjvnsjr3b63wxbah0wp5g7z7gba90dwbi")) + (modules '((guix build utils))) + (snippet + '(begin + ;; unvendor libqpdf + (delete-file-recursively "src/libqpdf") + (delete-file-recursively "src/include/qpdf") + #t)))) + (properties `((upstream-name . "qpdf"))) + (build-system r-build-system) + (arguments + '(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'configure + (lambda _ + (setenv "EXTERNAL_QPDF" "1") + #t))))) + (inputs + `(("zlib" ,zlib) + ("qpdf" ,qpdf))) + (propagated-inputs + `(("r-askpass" ,r-askpass) + ("r-curl" ,r-curl) + ("r-rcpp" ,r-rcpp))) + (native-inputs `(("pkg-config" ,pkg-config))) + (home-page "https://github.com/ropensci/qpdf") + (synopsis + "Split, Combine and Compress PDF Files") + (description + "Content-preserving transformations transformations of PDF files such as +split, combine, and compress. This package interfaces directly to the +@code{qpdf} C++ API and does not require any command line utilities. Note that +@code{qpdf} does not read actual content from PDF files: to extract text and +data you need the @code{pdftools} package.") + (license license:asl2.0))) + +(define-public r-pdftools + (package + (name "r-pdftools") + (version "2.3.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "pdftools" version)) + (sha256 + (base32 + "01i5g2mjkshis0zlm7lrvi7kkzl4dn3if1hzwkgzf9n2mi33ndsx")))) + (properties `((upstream-name . "pdftools"))) + (build-system r-build-system) + (inputs + `(("zlib" ,zlib) + ("poppler" ,poppler))) + (propagated-inputs + `(("r-qpdf" ,r-qpdf) ("r-rcpp" ,r-rcpp))) + (native-inputs `(("pkg-config" ,pkg-config))) + (home-page + "https://docs.ropensci.org/pdftools/") + (synopsis + "Text Extraction, Rendering and Converting of PDF Documents") + (description + "Utilities based on @code{libpoppler} for extracting text, fonts, +attachments and metadata from a PDF file. Also supports high quality rendering +of PDF documents into PNG, JPEG, TIFF format, or into raw bitmap vectors for +further processing in R.") + (license license:expat))) + +(define-public r-antiword + (package + (name "r-antiword") + (version "1.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "antiword" version)) + (sha256 + (base32 + "034znb0g9wwb8gi1r3z75v3sbb4mh83qrc4y8mbfx5lbgh8zhj6j")) + (modules '((guix build utils))) + (snippet + '(begin + ;; unvendor libantiword + (delete-file-recursively "src") + #t)))) + (properties `((upstream-name . "antiword"))) + (build-system r-build-system) + (arguments + '(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'use-system-antiword + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "R/antiword.R" + (("system.file\\(\"bin\", package = \"antiword\"\\)") + (string-append "\"" (assoc-ref inputs "antiword") "/bin\""))) + #t))))) + (inputs `(("antiword" ,antiword))) + (propagated-inputs `(("r-sys" ,r-sys))) + (home-page + "https://github.com/ropensci/antiword#readme") + (synopsis + "Extract Text from Microsoft Word Documents") + (description + "Wraps the @code{AntiWord} utility to extract text from Microsoft Word +documents. The utility only supports the old @code{doc} format, not the new +xml based @code{docx} format. Use the @code{xml2} package to read the +latter.") + (license license:gpl2))) + +(define-public r-readtext + (package + (name "r-readtext") + (version "0.80") + (source + (origin + (method url-fetch) + (uri (cran-uri "readtext" version)) + (sha256 + (base32 + "0q8ajnp99fwvh14ppkm2z3gqwdwmjrvxvsfb4q7ad0dhkqric05y")))) + (properties `((upstream-name . "readtext"))) + (build-system r-build-system) + (propagated-inputs + `(("r-antiword" ,r-antiword) + ("r-data-table" ,r-data-table) + ("r-digest" ,r-digest) + ("r-httr" ,r-httr) + ("r-jsonlite" ,r-jsonlite) + ("r-pdftools" ,r-pdftools) + ("r-readods" ,r-readods) + ("r-readxl" ,r-readxl) + ("r-streamr" ,r-streamr) + ("r-stringi" ,r-stringi) + ("r-striprtf" ,r-striprtf) + ("r-tibble" ,r-tibble) + ("r-xml2" ,r-xml2))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://github.com/quanteda/readtext") + (synopsis + "Import and Handling for Plain and Formatted Text Files") + (description + "This package provides functions for importing and handling text files +and formatted text files with additional meta-data, such including @code{.csv}, +@code{.tab}, @code{.json}, @code{.xml}, @code{.html}, @code{.pdf}, @code{.doc}, +@code{.docx}, @code{.rtf}, @code{.xls}, @code{.xlsx}, and others.") + (license license:gpl3))) + +(define-public r-packcircles + (package + (name "r-packcircles") + (version "0.3.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "packcircles" version)) + (sha256 + (base32 + "05pv5c4k4njkr0xw6i6ksiy34hcyx2lbiqpv5gxw81yrkm0rxfyk")))) + (properties `((upstream-name . "packcircles"))) + (build-system r-build-system) + (propagated-inputs `(("r-rcpp" ,r-rcpp))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://github.com/mbedward/packcircles") + (synopsis "Circle Packing") + (description + "Algorithms to find arrangements of non-overlapping circles.") + (license license:expat))) + +;; Cannot unbundle liblwgeom, because PostGIS does not support building it on +;; its own. +(define-public r-lwgeom + (package + (name "r-lwgeom") + (version "0.2-5") + (source + (origin + (method url-fetch) + (uri (cran-uri "lwgeom" version)) + (sha256 + (base32 + "0byhjqa2acns8mznl1ngnfygxxxyszvnq66qfg0smhhhdkwr67aa")))) + (properties `((upstream-name . "lwgeom"))) + (build-system r-build-system) + (inputs `(("geos" ,geos) ("proj" ,proj) ("sqlite" ,sqlite))) + (propagated-inputs + `(("r-rcpp" ,r-rcpp) + ("r-sf" ,r-sf) + ("r-units" ,r-units))) + (native-inputs `(("pkg-config" ,pkg-config))) + (home-page + "https://github.com/r-spatial/lwgeom/") + (synopsis + "Bindings to Selected 'liblwgeom' Functions for Simple Features") + (description + "Access to selected functions found in +@url{https://github.com/postgis/postgis/tree/master/liblwgeom,liblwgeom}, the +light-weight geometry library used by @url{http://postgis.net/,PostGIS}.") + (license license:gpl2))) + +(define-public r-stars + (package + (name "r-stars") + (version "0.5-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "stars" version)) + (sha256 + (base32 + "0ybk899rc0rpf2cv5kwk78fvis5xnr255hfcy5khdxsxdqgl0m9j")))) + (properties `((upstream-name . "stars"))) + (build-system r-build-system) + (propagated-inputs + `(("r-abind" ,r-abind) + ("r-classint" ,r-classint) + ("r-lwgeom" ,r-lwgeom) + ("r-rlang" ,r-rlang) + ("r-sf" ,r-sf) + ("r-units" ,r-units))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://r-spatial.github.io/stars/") + (synopsis + "Spatiotemporal Arrays, Raster and Vector Data Cubes") + (description + "Reading, manipulating, writing and plotting spatiotemporal arrays +(raster and vector data cubes) in @code{R}, using @code{GDAL} bindings provided +by @code{sf}, and @code{NetCDF} bindings by @code{ncmeta} and @code{RNetCDF}.") + (license license:asl2.0))) + +(define-public r-tmaptools + (package + (name "r-tmaptools") + (version "3.1-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "tmaptools" version)) + (sha256 + (base32 + "0bal3czrdr93qig8s5cf5szld5vjbbks67rismfhlkmlgw6wp2gx")))) + (properties `((upstream-name . "tmaptools"))) + (build-system r-build-system) + (propagated-inputs + `(("r-dichromat" ,r-dichromat) + ("r-lwgeom" ,r-lwgeom) + ("r-magrittr" ,r-magrittr) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-sf" ,r-sf) + ("r-stars" ,r-stars) + ("r-units" ,r-units) + ("r-viridislite" ,r-viridislite) + ("r-xml" ,r-xml))) + (home-page + "https://github.com/mtennekes/tmaptools") + (synopsis "Thematic Map Tools") + (description + "Set of tools for reading and processing spatial data. The aim is to +supply the workflow to create thematic maps. This package also facilitates +@code{tmap}, the package for visualizing thematic maps.") + (license license:gpl3))) + +(define-public r-rworldmap + (package + (name "r-rworldmap") + (version "1.3-6") + (source + (origin + (method url-fetch) + (uri (cran-uri "rworldmap" version)) + (sha256 + (base32 + "1q1h0n9qr0m5pdx10swrh9ddsvdj8kv5nqngrf3lnx9rg9iwivjk")))) + (properties `((upstream-name . "rworldmap"))) + (build-system r-build-system) + (propagated-inputs + `(("r-fields" ,r-fields) + ("r-maptools" ,r-maptools) + ("r-sp" ,r-sp))) + (home-page + "https://github.com/AndySouth/rworldmap/") + (synopsis "Mapping Global Data") + (description + "Enables mapping of country level and gridded user datasets.") + (license license:gpl2+))) + +(define-public r-rtweet + (package + (name "r-rtweet") + (version "0.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "rtweet" version)) + (sha256 + (base32 + "05pbvxm2vmf6935b9s6663k3aifnkr3m52wh2jvnplmrwyrfpn9n")))) + (properties `((upstream-name . "rtweet"))) + (build-system r-build-system) + (propagated-inputs + `(("r-httpuv" ,r-httpuv) + ("r-httr" ,r-httr) + ("r-jsonlite" ,r-jsonlite) + ("r-magrittr" ,r-magrittr) + ("r-progress" ,r-progress) + ("r-rcpp" ,r-rcpp) + ("r-tibble" ,r-tibble))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://docs.ropensci.org/rtweet/") + (synopsis "Collecting Twitter Data") + (description + "An implementation of calls designed to collect and organize Twitter data +via @url{https://developer.twitter.com/en/docs,Twitter's REST and stream +Application Program Interfaces (API)}.") + (license license:expat))) + +(define-public r-intervals + (package + (name "r-intervals") + (version "0.15.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "intervals" version)) + (sha256 + (base32 + "0mvwfwc03ifb30a3dzbmkv9adwqb8ajxhcw24d8xip8px063plhb")))) + (properties `((upstream-name . "intervals"))) + (build-system r-build-system) + (home-page "https://github.com/edzer/intervals") + (synopsis + "Tools for Working with Points and Intervals") + (description + "Tools for working with and comparing sets of points and intervals.") + (license license:artistic2.0))) + +(define-public r-eyelinker + (package + (name "r-eyelinker") + (version "0.2.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "eyelinker" version)) + (sha256 + (base32 + "14rfcdxad9iazwd46q6bm8gg1ryh6s8kf7arj00hhb7xz3gvk9c2")))) + (properties `((upstream-name . "eyelinker"))) + (build-system r-build-system) + (propagated-inputs + `(("r-intervals" ,r-intervals) + ("r-readr" ,r-readr) + ("r-stringi" ,r-stringi) + ("r-stringr" ,r-stringr) + ("r-tibble" ,r-tibble))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://github.com/a-hurst/eyelinker") + (synopsis + "Import ASC Files from EyeLink Eye Trackers") + (description + "Imports plain-text ASC data files from EyeLink eye trackers into +(relatively) tidy data frames for analysis and visualization.") + (license license:gpl3))) + +(define-public r-btm + (package + (name "r-btm") + (version "0.3.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "BTM" version)) + (sha256 + (base32 + "1x6bncb7r97z8bdyxnn2frdi9kyawfy6c2041mv9f42zdrfzm6jb")))) + (properties `((upstream-name . "BTM"))) + (build-system r-build-system) + (propagated-inputs `(("r-rcpp" ,r-rcpp))) + (home-page "https://github.com/bnosac/BTM") + (synopsis "Biterm Topic Models for Short Text") + (description + "Biterm Topic Models find topics in collections of short texts. It is a +word co-occurrence based topic model that learns topics by modeling word-word +co-occurrences patterns which are called biterms. This in contrast to +traditional topic models like Latent Dirichlet Allocation and Probabilistic +Latent Semantic Analysis which are word-document co-occurrence topic models. A +biterm consists of two words co-occurring in the same short text window. This +context window can for example be a twitter message, a short answer on a +survey, a sentence of a text or a document identifier. The techniques are +explained in detail in the paper 'A Biterm Topic Model For Short Text' by +Xiaohui Yan, Jiafeng Guo, Yanyan Lan, Xueqi Cheng (2013) +@url{https://github.com/xiaohuiyan/xiaohuiyan.github.io/blob/master/paper/\ +BTM-WWW13.pdf}.") + (license license:asl2.0))) + +(define-public r-textplot + (package + (name "r-textplot") + (version "0.1.4") + (source + (origin + (method url-fetch) + (uri (cran-uri "textplot" version)) + (sha256 + (base32 + "1sgkndy2cxk8c76h8hwajn6f78w5jj2n8vsmaxh9kj931crzn8cy")))) + (properties `((upstream-name . "textplot"))) + (build-system r-build-system) + (propagated-inputs + `(("r-data-table" ,r-data-table) + ("r-lattice" ,r-lattice) + ("r-matrix" ,r-matrix))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/bnosac/textplot") + (synopsis "Text Plots") + (description + "Visualise complex relations in texts. This is done by providing +functionalities for displaying text co-occurrence networks, text correlation +networks, dependency relationships as well as text clustering. Feel free to +join the effort of providing interesting text visualisations.") + (license license:gpl2))) |