diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 173 |
1 files changed, 118 insertions, 55 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 97518abc4c..22edad035a 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -1344,13 +1344,13 @@ compositional data.") (define-public r-gwasexacthw (package (name "r-gwasexacthw") - (version "1.01") + (version "1.2") (source (origin (method url-fetch) (uri (cran-uri "GWASExactHW" version)) (sha256 (base32 - "19qmk8h7kxmn9kzw0x4xns5p3qqz27xkqq4q6zmh4jzizd0fsl78")))) + "1xzcvmbh27ibd7g9zlqyp215q4yfkhdypcvm5gjkvw1qhd3pl4yk")))) (properties `((upstream-name . "GWASExactHW"))) (build-system r-build-system) (home-page "https://cran.r-project.org/package=GWASExactHW") @@ -2318,13 +2318,13 @@ known as Dynamic Linear Models.") (define-public r-zcompositions (package (name "r-zcompositions") - (version "1.5.0-2") + (version "1.5.0-3") (source (origin (method url-fetch) (uri (cran-uri "zCompositions" version)) (sha256 (base32 - "08kcl870x7kai7zdhqgm4cbfhbrf673rjxghbwpn08l7pwkhix60")))) + "1gbwx3vgx5viqnn5jsszild6ikyc2pmf1hdjc9475caf9xx9l589")))) (properties `((upstream-name . "zCompositions"))) (build-system r-build-system) (propagated-inputs @@ -3841,6 +3841,30 @@ algorithm described in MetaCell analysis of single-cell RNA-seq data using K-nn graph partitions.") (license license:gpl2))) +(define-public r-tictoc + (package + (name "r-tictoc") + (version "1.2.1") + (source (origin + (method url-fetch) + (uri (cran-uri "tictoc" version)) + (sha256 + (base32 + "0cw8r1gn4p2v1l3d80brk9sfr9nyckyyym5nr9xq3d74l74vgkcg")))) + (properties `((upstream-name . "tictoc"))) + (build-system r-build-system) + (home-page "https://github.com/jabiru/tictoc") + (synopsis + "Time R scripts and implementations of stack and list structures") + (description + "The tictoc package provides the timing functions @code{tic} and +@code{toc} that can be nested. It provides an alternative to +@code{system.time()} with a different syntax similar to that in another +well-known software package. @code{tic} and @code{toc} are easy to use, and +are especially useful when timing several sections in more than a few lines of +code.") + (license license:asl2.0))) + (define-public r-tidyft (package (name "r-tidyft") @@ -4998,14 +5022,14 @@ weights.") (define-public r-sass (package (name "r-sass") - (version "0.4.8") + (version "0.4.9") (source (origin (method url-fetch) (uri (cran-uri "sass" version)) (sha256 (base32 - "0364ndnmlqrga3k4c1hfy1894k5wpm9srf9201g9zb92rlq2kfj2")))) + "1lnl2xssz33vg7p6a8ij55hg6j1p1d3y2mq22pvf0r3rmnd08cz1")))) (properties `((upstream-name . "sass"))) (build-system r-build-system) (propagated-inputs @@ -6515,13 +6539,13 @@ processes. Most of its code is based on the @code{psutil} Python package.") (define-public r-pkgbuild (package (name "r-pkgbuild") - (version "1.4.3") + (version "1.4.4") (source (origin (method url-fetch) (uri (cran-uri "pkgbuild" version)) (sha256 - (base32 "0rci20gj2x0bgjy51jp8i4gld6arsigj7lhdkpwvdyhadjsyv0qm")))) + (base32 "1a72s2gg7ddjj94naiii44f3vyhky05gaa6xvdf72m1nshy88wjr")))) (build-system r-build-system) (propagated-inputs (list r-callr r-cli r-desc r-processx r-r6)) @@ -8945,14 +8969,14 @@ problems as well as resampling based estimators of prediction error.") (define-public r-psych (package (name "r-psych") - (version "2.4.1") + (version "2.4.3") (source (origin (method url-fetch) (uri (cran-uri "psych" version)) (sha256 (base32 - "08ip2m91c6hinva18zv575cn6w14pnjc503m1gisrg65c3z3f69b")))) + "0ic479y314knn20m1cjlp15lji7f70xrg95ln570pgkhrk5853bi")))) (build-system r-build-system) (propagated-inputs (list r-lattice r-mnormt r-nlme)) @@ -9132,13 +9156,13 @@ from the data points.") (define-public r-coro (package (name "r-coro") - (version "1.0.3") + (version "1.0.4") (source (origin (method url-fetch) (uri (cran-uri "coro" version)) (sha256 - (base32 "0wvxdpdh3xrskz5s5wfkva856x849knx1jigbf0ff6s6n6qjjxsf")))) + (base32 "0r6cb2gr29vxjlbfzqxdgbccp57l6raxncljisl1vyj6xi2by8cg")))) (properties `((upstream-name . "coro"))) (build-system r-build-system) (propagated-inputs (list r-rlang)) @@ -10277,13 +10301,13 @@ constants, and control debugging of packages via environment variables.") (define-public r-processx (package (name "r-processx") - (version "3.8.3") + (version "3.8.4") (source (origin (method url-fetch) (uri (cran-uri "processx" version)) (sha256 - (base32 "0cfq6pq8rg0vhjfgvf48hfvngbn1g6hv28b6pgxh55xqh8acbn0s")))) + (base32 "02z7n59pglz6jw1vyyl0mkc7mz2c7y8yzsnhq5yz62digwnnf9v6")))) (build-system r-build-system) (propagated-inputs (list r-ps r-r6)) @@ -10712,14 +10736,14 @@ vectors.") (define-public r-tinytex (package (name "r-tinytex") - (version "0.49") + (version "0.50") (source (origin (method url-fetch) (uri (cran-uri "tinytex" version)) (sha256 (base32 - "0i9icscy5n6p6w3f4v2z3cznywrrv2l6xyyhb0k1fpa4cpn6j4cl")))) + "11k0pl073b4k4wmpxkw4a071jbpvhr1g3cwm9v99rw3gh6p6x15l")))) (build-system r-build-system) (propagated-inputs (list r-xfun)) @@ -10797,13 +10821,13 @@ implementation of an approximate nearest neighbor search using hierarchical (define-public r-nestedcv (package (name "r-nestedcv") - (version "0.7.4") + (version "0.7.8") (source (origin (method url-fetch) (uri (cran-uri "nestedcv" version)) (sha256 - (base32 "0ymy1dbkcpiyq44zpvpkz1m5ivnchip07q6agh6ij50imddxb48s")))) + (base32 "1pdky7kzqs1rhl0f4hba3sggifplfgbp339imxym4dvvdb81b589")))) (properties `((upstream-name . "nestedcv"))) (build-system r-build-system) (propagated-inputs (list r-caret @@ -10812,13 +10836,13 @@ implementation of an approximate nearest neighbor search using hierarchical r-foreach r-ggplot2 r-glmnet - r-magrittr r-matrixstats r-matrixtests r-proc r-rfast r-rhpcblasctl - r-rlang)) + r-rlang + r-rocr)) (native-inputs (list r-knitr)) (home-page "https://github.com/myles-lewis/nestedcv") (synopsis "Nested cross-validation with glmnet and caret") @@ -12593,6 +12617,45 @@ contain lags, diffs and missing values.") ;; Any GPL version. (license license:gpl2+))) +(define-public r-dyngen + (package + (name "r-dyngen") + (version "1.0.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "dyngen" version)) + (sha256 + (base32 + "095jqn1rd83qm3ayca9hmv6bhlaa2c338020l46vniq8n38kbnra")))) + (properties `((upstream-name . "dyngen"))) + (build-system r-build-system) + (propagated-inputs + (list r-assertthat + r-dplyr + r-dynutils + r-ggplot2 + r-ggraph + r-ggrepel + r-gillespiessa2 + r-igraph + r-lmds + r-matrix + r-patchwork + r-pbapply + r-purrr + r-rlang + r-tibble + r-tidygraph + r-tidyr + r-viridis)) + (home-page "https://github.com/dynverse/dyngen") + (synopsis "Multi-Modal simulator for single-cell omics analyses") + (description + "This package provides a multi-modal simulation engine for studying +dynamic cellular processes at single-cell resolution.") + (license license:expat))) + (define-public r-dynutils (package (name "r-dynutils") @@ -13709,14 +13772,14 @@ Sequence logos can easily be combined with other ggplot2 plots.") (define-public r-ggsci (package (name "r-ggsci") - (version "3.0.1") + (version "3.0.2") (source (origin (method url-fetch) (uri (cran-uri "ggsci" version)) (sha256 (base32 - "030rkjx64mlhy19d74p3blsi92nyjq9vbn33323dvm1rihb8avgi")))) + "0qasxv3aliqqmfi3nk3140lrbcrw4lbfw5hm65hfkgf5a3bkca67")))) (build-system r-build-system) (propagated-inputs (list r-ggplot2 r-scales)) @@ -14486,14 +14549,14 @@ Decomposition in R (Beaton et al 2014) <doi:10.1016/j.csda.2013.11.006>.") (define-public r-insight (package (name "r-insight") - (version "0.19.8") + (version "0.19.9") (source (origin (method url-fetch) (uri (cran-uri "insight" version)) (sha256 (base32 - "1f76fqrcv54l01z2nb46ysh3f41j06nqpn4ffn2gmjfggmj4xvwq")))) + "0q6wd28bnav9vwzprwvm9fhpmhqvq85iyg4h503lavcvi5g39a9x")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -14730,13 +14793,13 @@ contains or can be specified by the user.") (define-public r-wrs2 (package (name "r-wrs2") - (version "1.1-5") + (version "1.1-6") (source (origin (method url-fetch) (uri (cran-uri "WRS2" version)) (sha256 (base32 - "028xs424m879siaf3rrhzl1dacp9j7wcl5fpikyx2n0cc7anq4vq")))) + "1wsnsl4gy1hbgxfzzhfybak0jqmxq9fsh3scqyxydd7ia9r2n52k")))) (properties `((upstream-name . "WRS2"))) (build-system r-build-system) (propagated-inputs (list r-mass r-plyr r-reshape)) @@ -16610,13 +16673,13 @@ handle data from simple random samples as well as complex surveys.") (define-public r-tarchetypes (package (name "r-tarchetypes") - (version "0.7.12") + (version "0.8.0") (source (origin (method url-fetch) (uri (cran-uri "tarchetypes" version)) (sha256 (base32 - "0l5kk7a3p0pbqh9rrjz43aa4dgcfffcb3wwsl60bm9v48lzv7frv")))) + "18vn2mx5nqlib0by5v7493g8gsbzcdbg0dn92cpbf713r69v1lbk")))) (properties `((upstream-name . "tarchetypes"))) (build-system r-build-system) (propagated-inputs (list r-digest @@ -16644,13 +16707,13 @@ were influenced by the drake R package by Will Landau (2018) (define-public r-targets (package (name "r-targets") - (version "1.5.1") + (version "1.6.0") (source (origin (method url-fetch) (uri (cran-uri "targets" version)) (sha256 (base32 - "1g21cp0p5jdghr61w9q3y73jm2k248z4apn7rlxqm6m18i4x7zsb")))) + "1ddpbhvdydxm62k6ay7hpqjh8kh2isjpcdh3gygzcdrghx6d7x65")))) (properties `((upstream-name . "targets"))) (build-system r-build-system) (propagated-inputs (list r-base64url @@ -17783,14 +17846,14 @@ more information about packages, and where they were installed from.") (define-public r-remotes (package (name "r-remotes") - (version "2.4.2.1") + (version "2.5.0") (source (origin (method url-fetch) (uri (cran-uri "remotes" version)) (sha256 (base32 - "1790q52z4fy4zb1hnpn066q9fph53syl7gaxlbgbqq1dcndcma3v")))) + "0345s9q0fyv0wrxkklcy97h7bi85jfb3vwkh80px926d4qa3yrjd")))) (build-system r-build-system) (native-inputs (list r-knitr)) @@ -19201,14 +19264,14 @@ Processing.") (define-public r-tm (package (name "r-tm") - (version "0.7-11") + (version "0.7-12") (source (origin (method url-fetch) (uri (cran-uri "tm" version)) (sha256 (base32 - "0hp7xamjmifd56qwsin5m0xng592wwxsbfxdz37n4k6zjf28paws")))) + "1z0zpz6jgzg34cz07cdpya2zwwsvywrd8xgwahhlz15vnaij7j3y")))) (properties `((upstream-name . "tm"))) (build-system r-build-system) (propagated-inputs @@ -20432,14 +20495,14 @@ preparing, executing, and processing HTTP requests.") (define-public r-bigrquery (package (name "r-bigrquery") - (version "1.5.0") + (version "1.5.1") (source (origin (method url-fetch) (uri (cran-uri "bigrquery" version)) (sha256 (base32 - "1s2vvygv4d8mdd67r6j2s9d1xg009lpxysfarmrnqh0s2s1rglkz")))) + "0wkm9xka83skq1cnv830q4jnqvwm8rlmns2mj8n692h2y5qxlmna")))) (build-system r-build-system) (propagated-inputs (list r-bit64 @@ -23730,13 +23793,13 @@ lspec, polyclass, and polymars.") (define-public r-rms (package (name "r-rms") - (version "6.7-1") + (version "6.8-0") (source (origin (method url-fetch) (uri (cran-uri "rms" version)) (sha256 - (base32 "199xb98zxsbd8wa9g33bgrvbcpq79glnfmq060ic8f9vjw96r0qz")))) + (base32 "1cd6m6i2ild2f2x9rkyd2aqb33q3xy0596bs3dnvr2mnh5fcar5d")))) (build-system r-build-system) (propagated-inputs (list r-cluster @@ -25634,14 +25697,14 @@ colored by the number of neighboring points. This is useful to visualize the (define-public r-arrow (package (name "r-arrow") - (version "14.0.2.1") + (version "15.0.1") (source (origin (method url-fetch) (uri (cran-uri "arrow" version)) (sha256 (base32 - "1l1ninmq6mbqm7cckcy0qw4f20fkrixrykcqkh24bszg514r9af5")))) + "070pp0p5h1ij7pg34l5grrx4vwfihagnvnk4kj7l3w0gh8y88ibz")))) (properties `((upstream-name . "arrow"))) (build-system r-build-system) (inputs @@ -27446,14 +27509,14 @@ in pipelines.") (define-public r-parameters (package (name "r-parameters") - (version "0.21.5") + (version "0.21.6") (source (origin (method url-fetch) (uri (cran-uri "parameters" version)) (sha256 (base32 - "0yxljycspmljj5s4i5knwyhxp29s616f7kg3xcwn0ip15kfg260v")))) + "004ld3m9qdq3bwl8qmp3h700kzqlgbmgz739d7fpiqgrs0s2gv83")))) (properties `((upstream-name . "parameters"))) (build-system r-build-system) (propagated-inputs @@ -28790,14 +28853,14 @@ discussed in Reisen et al. (2017) @url{doi:10.1016/j.jspi.2017.02.008}.") (define-public r-gamlss-data (package (name "r-gamlss-data") - (version "6.0-2") + (version "6.0-6") (source (origin (method url-fetch) (uri (cran-uri "gamlss.data" version)) (sha256 (base32 - "07mpdl4h9rwmnpl9jmsn6ig8ji11an6pyjfsvg62h2alapwbdcyv")))) + "08mb154mz1kk19zb414i5mg1q1yv7nylwpc5kzsb602mv4cxpq5s")))) (properties `((upstream-name . "gamlss.data"))) (build-system r-build-system) (home-page "http://www.gamlss.org/") @@ -32360,14 +32423,14 @@ Latent regression models and plausible value imputation are also supported.") (define-public r-erm (package (name "r-erm") - (version "1.0-5") + (version "1.0-6") (source (origin (method url-fetch) (uri (cran-uri "eRm" version)) (sha256 (base32 - "0bkivhiy02pibdcvb9z0i0yvc3wz3v33n6slhkkik61gcw1idmf0")))) + "059xny2jl81is1qyxgpbf4qi5zqpvdc64322kjz1i011kq9apwmw")))) (properties `((upstream-name . "eRm"))) (build-system r-build-system) (propagated-inputs @@ -35664,14 +35727,14 @@ model.") (define-public r-igraph (package (name "r-igraph") - (version "2.0.2") + (version "2.0.3") (source (origin (method url-fetch) (uri (cran-uri "igraph" version)) (sha256 (base32 - "0kfc9blyy54cz0m4mdzzwgvn0rkil49kdk438411mx62g2vxby9l")))) + "0xlg5lxzr8dc260fii43chsspqvb962i1yrcars988b78lnig2lf")))) (properties `((upstream-name . "igraph") (updater-extra-native-inputs . ("which")))) @@ -35679,7 +35742,7 @@ model.") (native-inputs (list gfortran pkg-config r-knitr which)) (inputs - (list glpk gmp libxml2 zlib)) + (list glpk libxml2 zlib)) (propagated-inputs (list r-cli r-cpp11 @@ -36893,13 +36956,13 @@ other R users.") (define-public r-seurat (package (name "r-seurat") - (version "5.0.2") + (version "5.0.3") (source (origin (method url-fetch) (uri (cran-uri "Seurat" version)) (sha256 (base32 - "1d49a9mhip81lvnkr8i4dznkmzyskdzrpi485w7yw2sr0qbyzg5c")))) + "08r5l6sk8i134izd29ydfm7hva7a9b3lfglmgngc9w73qs9dzwz4")))) (properties `((upstream-name . "Seurat"))) (build-system r-build-system) (propagated-inputs @@ -37669,13 +37732,13 @@ computational operations, add-on packages provide additional functionality.") (define-public r-mlr3learners (package (name "r-mlr3learners") - (version "0.5.8") + (version "0.6.0") (source (origin (method url-fetch) (uri (cran-uri "mlr3learners" version)) (sha256 (base32 - "0q44qmd9zfc68jl2zz684rx9744g83vd7z40dck8cdvnnrxcff5g")))) + "06gz6h19cnb62js1b35nddy453dyj64mr788p8ww56kgfk6yzxr8")))) (build-system r-build-system) (propagated-inputs (list r-checkmate @@ -38020,14 +38083,14 @@ the font tool-set provided by the @code{systemfonts} package.") (define-public r-ragg (package (name "r-ragg") - (version "1.2.7") + (version "1.3.0") (source (origin (method url-fetch) (uri (cran-uri "ragg" version)) (sha256 (base32 - "17qc53scxf02f8hlpyirsjdav4wjh3mk6q04npf82y0j5mk1hynp")))) + "1chlas4i6p8gigx02x1y7nanmz9jbv1h4fa145zk223bbg9j931j")))) (properties `((upstream-name . "ragg"))) (build-system r-build-system) (inputs |