gnu: r-shapforxgboost: Update to 0.1.1.

[jackhill/guix/guix.git] / gnu / packages / cran.scm

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 5df2bbf..e94f447 100644 (file)
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33,6 +33,7 @@
 ;;; Copyright © 2020 Magali Lemes <magalilemes00@gmail.com>
 ;;; Copyright © 2020 Simon Tournier <zimon.toutoune@gmail.com>
 ;;; Copyright © 2020 Aniket Patil <aniket112.patil@gmail.com>
+;;; Copyright © 2021 Tim Howes <timhowes@lavabit.com>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -155,14 +156,14 @@ automatically pruning objects to maintain the constraints.")
 (define-public r-diffobj
   (package
     (name "r-diffobj")
-    (version "0.3.3")
+    (version "0.3.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "diffobj" version))
        (sha256
         (base32
-         "1x3d5sk8mk0s2d7dq8wxi1zv6krlx33n22ls2jwnb58b8xrmakj1"))))
+         "1z4yhfasjpi9rxl1lh9bny7yvs947a6hhc768azc1wwad748mk9q"))))
     (properties `((upstream-name . "diffobj")))
     (build-system r-build-system)
     (propagated-inputs `(("r-crayon" ,r-crayon)))
@@ -392,13 +393,13 @@ variables.")
 (define-public r-ggpmisc
   (package
     (name "r-ggpmisc")
-    (version "0.3.8-1")
+    (version "0.3.9")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "ggpmisc" version))
               (sha256
                (base32
-                "0kcrh73nwha52vl6z35wafmqs5lsdh2p4nqvi2ir70cv1k5y46zf"))))
+                "0nb0lpwqph9334s9sq77mk3nd22icy9d9hywz4awhf6nvp5rcc2v"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-dplyr" ,r-dplyr)
@@ -500,14 +501,14 @@ higher.")
 (define-public r-oenb
   (package
     (name "r-oenb")
-    (version "0.0.1")
+    (version "0.0.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "oenb" version))
        (sha256
         (base32
-         "1x1jlqp6r27c4gb7wafzpmh5rq6yq61a2d395r5lsmv2g5jb4biz"))))
+         "1jgxw7ycx2lcdzglg9nix8k08fs4r6i5jdsjzrd6w1dg6smsinl5"))))
     (properties `((upstream-name . "oenb")))
     (build-system r-build-system)
     (propagated-inputs
@@ -926,14 +927,14 @@ package is a port of the Python package @code{cssselect}.")
 (define-public r-reprex
   (package
     (name "r-reprex")
-    (version "1.0.0")
+    (version "2.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "reprex" version))
        (sha256
         (base32
-         "07nzx0fdl48jw95ipx17ql0l13q60yl3rjrkj1m375wrc7h1v5nx"))))
+         "1lcnxczy28n4g3rvph09va7svcznfyqa7zdggklqb924qvy7flwh"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-callr" ,r-callr)
@@ -944,6 +945,7 @@ package is a port of the Python package @code{cssselect}.")
        ("r-knitr" ,r-knitr)
        ("r-rlang" ,r-rlang)
        ("r-rmarkdown" ,r-rmarkdown)
+       ("r-rstudioapi" ,r-rstudioapi)
        ("r-withr" ,r-withr)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -982,14 +984,14 @@ same time tries to group instances from the same class together.")
 (define-public r-callr
   (package
     (name "r-callr")
-    (version "3.5.1")
+    (version "3.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "callr" version))
        (sha256
         (base32
-         "15l6ppsxdadlnl4fk0f8bvf327n8izk96px5d08m1ay9iij8qcyf"))))
+         "050s7l1ipi6snbj6xnk052l6acycnxjyzv84026adw5x8kki0yz6"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-r6" ,r-r6)
@@ -2838,31 +2840,6 @@ where the bound function accepts additional arguments.")
 bindings that call a C++ function.")
     (license license:expat)))
 
-(define-public r-bisquerna
-  (package
-   (name "r-bisquerna")
-   (version "1.0.4")
-   (source (origin
-            (method url-fetch)
-            (uri (cran-uri "BisqueRNA" version))
-            (sha256
-             (base32
-              "01g34n87ml7n3pck77497ddgbv3rr5p4153ac8ninpgjijlm3jw2"))))
-   (properties `((upstream-name . "BisqueRNA")))
-   (build-system r-build-system)
-   (propagated-inputs
-    `(("r-biobase" ,r-biobase)
-      ("r-limsolve" ,r-limsolve)))
-   (home-page "https://www.biorxiv.org/content/10.1101/669911v1")
-   (synopsis "Decomposition of bulk expression with single-cell sequencing")
-   (description "This package provides tools to accurately estimate cell type
-abundances from heterogeneous bulk expression.  A reference-based method
-utilizes single-cell information to generate a signature matrix and
-transformation of bulk expression for accurate regression based estimates.
-A marker-based method utilizes known cell-specific marker genes to measure
-relative abundances across samples.")
-   (license license:gpl3)))
-
 (define-public r-auc
   (package
     (name "r-auc")
@@ -3792,7 +3769,7 @@ statistics/methods are implemented.")
        (uri (cran-uri "SuppDists" version))
        (sha256
         (base32
-         "01j6p94m1g363nph2158fq2rmd6z3h5dvcv6aidh2d6syw131xak"))))
+         "1i3iq12a5x5k49ac01mikzcrrq9gc148xq3m08h4xm07bha6f2v8"))))
     (properties `((upstream-name . "SuppDists")))
     (build-system r-build-system)
     (home-page "https://cran.r-project.org/web/packages/SuppDists")
@@ -4219,14 +4196,14 @@ provided.")
 (define-public r-ipred
   (package
     (name "r-ipred")
-    (version "0.9-10")
+    (version "0.9-11")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ipred" version))
        (sha256
         (base32
-         "0p9cd2v47h71jbz8q0z6xykkaqpcp0mkpsfmd2bn961n1hfgpa63"))))
+         "04hfg27c72v0fz4091w3rgbc2vd7g6yl78y9plvsvh0vjlx8ymmp"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-class" ,r-class)
@@ -4246,19 +4223,21 @@ problems as well as resampling based estimators of prediction error.")
 (define-public r-psych
   (package
     (name "r-psych")
-    (version "2.0.12")
+    (version "2.1.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "psych" version))
        (sha256
         (base32
-         "0k5dw5nb7kx7f21b0z01dry99qcpnk7iaicv7xq9d35wv2hx8wca"))))
+         "1ibh1ivr280wpmk3qjgm715dk79wx0ikjl9jjjcqs03q6vz4wmdx"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-lattice" ,r-lattice)
        ("r-mnormt" ,r-mnormt)
        ("r-nlme" ,r-nlme)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://cran.r-project.org/web/packages/psych/")
     (synopsis "Procedures for psychological, psychometric, and personality research")
     (description
@@ -4299,14 +4278,14 @@ by base R methods related to model fitting.")
 (define-public r-broom
   (package
     (name "r-broom")
-    (version "0.7.5")
+    (version "0.7.6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "broom" version))
        (sha256
         (base32
-         "1qjyl5b100bsakm48w1vi3819lkpys7vb86n1sv9h4y2wr1c4jmw"))))
+         "1ljcl8mh0yqxw3qxzar482qwbxbcaim1x6y1wm82ws12pfdw0j8n"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-backports" ,r-backports)
@@ -4789,14 +4768,14 @@ structure.")
 (define-public r-vioplot
   (package
     (name "r-vioplot")
-    (version "0.3.5")
+    (version "0.3.6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "vioplot" version))
        (sha256
         (base32
-         "0aiy615kn9lpr2cs757g3pklg81n01yhqh0wrwv111fn3cy86r0v"))))
+         "15vmrm9gwdhfg8mnq8rsg7m59kzc9h53cv96am4ds1dkm56w4n6p"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-sm" ,r-sm)
@@ -5072,18 +5051,17 @@ plots in @code{ggplot2}.")
 (define-public r-cli
   (package
     (name "r-cli")
-    (version "2.3.1")
+    (version "2.4.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "cli" version))
        (sha256
         (base32
-         "1jh64ixn6mg2ap1sx4azrxkjnlsyjbfxyc9zjkx8m9dlakgf4v2i"))))
+         "0l1s9yv23bc7mm0hfdlamgz4wjfrisv8aylr65ihjs98jsynrkg3"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-assertthat" ,r-assertthat)
-       ("r-glue" ,r-glue)))
+     `(("r-glue" ,r-glue)))
     (home-page "https://github.com/r-lib/cli#readme")
     (synopsis "Helpers for developing command line interfaces")
     (description "This package provides a suite of tools designed to build
@@ -5135,13 +5113,13 @@ constants, and control debugging of packages via environment variables.")
 (define-public r-processx
   (package
     (name "r-processx")
-    (version "3.4.5")
+    (version "3.5.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "processx" version))
        (sha256
-        (base32 "055v2gdrgqsfy8s672wsq79bqr44b4jjmcbqivx4p2d6lqx10s73"))))
+        (base32 "1z7zag7g041xlhzhkdfl33y2phc877h1pwj9k69p69b967qi6p6k"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ps" ,r-ps)
@@ -5282,13 +5260,13 @@ 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
     #;
@@ -5304,15 +5282,17 @@ 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
@@ -5345,18 +5325,17 @@ to variables on the left-hand side of the assignment.")
 (define-public r-vctrs
   (package
     (name "r-vctrs")
-    (version "0.3.6")
+    (version "0.3.7")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "vctrs" version))
        (sha256
         (base32
-         "09ddxgzyah7lw42hn6n8fynsixf43s10jamsf94d2aidky63czfz"))))
+         "03hyxk3x635xfdn2x707gygdb2xk0cayl1nl44zib9bwqyyb7nas"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-digest" ,r-digest)
-       ("r-ellipsis" ,r-ellipsis)
+     `(("r-ellipsis" ,r-ellipsis)
        ("r-glue" ,r-glue)
        ("r-rlang" ,r-rlang)))
     (native-inputs
@@ -5434,14 +5413,14 @@ terminals.")
 (define-public r-tinytex
   (package
     (name "r-tinytex")
-    (version "0.30")
+    (version "0.31")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tinytex" version))
        (sha256
         (base32
-         "0dk6mpszwh1m65b0wfwjlcvpzywmasf6p31niqiq53wnd92my0gw"))))
+         "04a3ncaxix30n9m73slpsn1idxv7j1f7fy3nhxpvkk514x9rgg0p"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-xfun" ,r-xfun)))
@@ -5749,14 +5728,14 @@ sapa R packages.")
 (define-public r-sapa
   (package
     (name "r-sapa")
-    (version "2.0-2")
+    (version "2.0-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sapa" version))
        (sha256
         (base32
-         "056xlh14dnzq4x7sbp7ff2k61jxy7110a742b502vz549qfrr5ds"))))
+         "0kj681rd4c2lvqr926lb6f4qwp281x5274dg6vbk8pf5y7s0qlpc"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ifultools" ,r-ifultools)
@@ -6728,14 +6707,14 @@ evaluated by the @dfn{Akaike Information Criterion} (AIC).")
 (define-public r-arules
   (package
     (name "r-arules")
-    (version "1.6-6")
+    (version "1.6-7")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "arules" version))
        (sha256
         (base32
-         "1pk3jjizn2m5rwi7qkdkbq9f07acgpy0qdzzqmx0agg47cwahlkm"))))
+         "0m80kndfbannw8h53nqdd5wl8h33q2z259aa1cp1nwadaxf9fc1q"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-matrix" ,r-matrix)))
@@ -6909,14 +6888,14 @@ 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)
@@ -7253,14 +7232,14 @@ Python's @url{https://github.com/ActiveState/appdirs,Appdirs} to R.")
 (define-public r-rastervis
   (package
     (name "r-rastervis")
-    (version "0.50")
+    (version "0.50.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rasterVis" version))
        (sha256
         (base32
-         "0m7fjd53apxim0d0rjnyzc28vmfcg4spcrn0zbnk8llillxji1hi"))))
+         "1fkmyllydnmk3j2cmgf86r91wyxf2kh573x8bkck7wgkfniw4h7w"))))
     (properties `((upstream-name . "rasterVis")))
     (build-system r-build-system)
     (propagated-inputs
@@ -7312,14 +7291,14 @@ those searches and pull data into their R sessions.")
 (define-public r-renv
   (package
     (name "r-renv")
-    (version "0.13.0")
+    (version "0.13.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "renv" version))
        (sha256
         (base32
-         "16n2dz9jibc03f7q1wrzxss6l5jmaks7m2lnli9dz9anvcmxbdia"))))
+         "0jlsf6vfvqhr4i35xy3xf1ixkfillivzy3wbpl6ca9vyjpnhiwj1"))))
     (properties `((upstream-name . "renv")))
     (build-system r-build-system)
     (native-inputs
@@ -7883,14 +7862,14 @@ hierarchical models using Markov Chain Monte Carlo (MCMC) simulation.")
 (define-public r-rbibutils
   (package
     (name "r-rbibutils")
-    (version "2.0")
+    (version "2.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rbibutils" version))
        (sha256
         (base32
-         "1vfg2188i4dyhrmvnwpsh2la8qkd4wkryz2fpj4cppi1wfz3ml83"))))
+         "13phw0dk3p3s1z45ff7dbqnn27zws1209mp3d4763zh7xnsdsl44"))))
     (properties `((upstream-name . "rbibutils")))
     (build-system r-build-system)
     (home-page "https://geobosh.github.io/rbibutils/")
@@ -7931,14 +7910,14 @@ references and Rd files.")
 (define-public r-officer
   (package
     (name "r-officer")
-    (version "0.3.17")
+    (version "0.3.18")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "officer" version))
        (sha256
         (base32
-         "1apg0dh1zfhrqcbbmm8318l40gyjbqc2l9sdvwxx7qi8mzc1mqvw"))))
+         "1j3bv4j8x5ijj0j447vpdsk4p8pl3ncwdwnns6n3plfrqgsf3vsg"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-r6" ,r-r6)
@@ -8192,14 +8171,14 @@ other add-on packages.")
 (define-public r-insight
   (package
     (name "r-insight")
-    (version "0.13.1")
+    (version "0.13.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "insight" version))
        (sha256
         (base32
-         "1la4yxzfl9fnknamnaziil6gvpdzl78z16lfzis9jgzg8r9q0y5l"))))
+         "03b7kd17h25mi1si40ibcp3jpasyqpj51mr8js0ywywyfw7909j1"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -8328,14 +8307,14 @@ 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)
@@ -8662,14 +8641,14 @@ 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)))
@@ -9689,14 +9668,14 @@ 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 "2.7.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "magick" version))
        (sha256
         (base32
-         "1k4fqhxh2ppynl56fs044wpn4wk6gbv6lwp2x4x7j67zwcv56n36"))))
+         "16svy84dq25g69axqgympsrh8dzssa1w3zz08zc8m6nprr3jqwqf"))))
     (build-system r-build-system)
     (inputs
      `(("imagemagick" ,imagemagick)
@@ -10131,14 +10110,14 @@ Hothorn, Westfall, 2010, CRC Press).")
 (define-public r-emmeans
   (package
     (name "r-emmeans")
-    (version "1.5.4")
+    (version "1.5.5-1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "emmeans" version))
        (sha256
         (base32
-         "1rbh3ls23fazrwpsam5llk3kqdzz2zvsms3i4f1cgn34ky3w8361"))))
+         "0l5dd71ihhs7zy6ygniy07iisgy7a1ai1w41hqf84swb0j3cl6iz"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-estimability" ,r-estimability)
@@ -10421,14 +10400,14 @@ effects models and Bayesian models.")
 (define-public r-ggeffects
   (package
     (name "r-ggeffects")
-    (version "1.0.1")
+    (version "1.0.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ggeffects" version))
        (sha256
         (base32
-         "1c5rvycaqp7zp1j6j17c84v8nlpi0w7bhfxmcha4n37m0snk1kgy"))))
+         "0qh8x8yi8gkb5x7zfxmb1c689k7bhc1f5947yymny34j7xdsb9s8"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-insight" ,r-insight)
@@ -10451,14 +10430,14 @@ results using @code{ggplot2}.")
 (define-public r-effectsize
   (package
     (name "r-effectsize")
-    (version "0.4.3")
+    (version "0.4.4-1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "effectsize" version))
        (sha256
         (base32
-         "1hcrnax9wf0nwsb8nv15rxw8yy8w5dak16dw3w5bxi8xnf56lkz2"))))
+         "02rwf3lxnzgc8yh0wridsc6lqr9s6v0cqzbk4biwnr494rvs46zb"))))
     (properties `((upstream-name . "effectsize")))
     (build-system r-build-system)
     (propagated-inputs
@@ -10568,14 +10547,14 @@ repositories.")
 (define-public r-gh
   (package
     (name "r-gh")
-    (version "1.2.0")
+    (version "1.2.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gh" version))
        (sha256
         (base32
-         "1zvy3ylxvni10lhvmbm9h14mg4wlsbdbzbzviwf28jxss8749219"))))
+         "16xa1qb1r28f8yc6ybjrxiq2zigxj886dp9k29jpsn5091xbzkq0"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cli" ,r-cli)
@@ -10679,14 +10658,14 @@ user credentials.")
 (define-public r-gert
   (package
     (name "r-gert")
-    (version "1.2.0")
+    (version "1.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gert" version))
        (sha256
         (base32
-         "0ag2ia6cfb5drf3517lg5nhik1w0nv09a75wdy5jdciws1qra3d6"))))
+         "1fh72p92wj83yv1ch77jms6k1gjqfji8cmgw23vpxd0p8l9jj4h7"))))
     (properties `((upstream-name . "gert")))
     (build-system r-build-system)
     (inputs
@@ -10779,14 +10758,14 @@ more information about packages, and where they were installed from.")
 (define-public r-remotes
   (package
     (name "r-remotes")
-    (version "2.2.0")
+    (version "2.3.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "remotes" version))
        (sha256
         (base32
-         "1f1kdw9j1wald3fs8b3n68x1kljy07j60g3aw1aarx26ikyk9whj"))))
+         "0f35648bdxhvplcfj80r4hfj5w21f1s01kcz6b29d098c1mnfzb7"))))
     (build-system r-build-system)
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -10905,14 +10884,14 @@ ways.")
 (define-public r-summarytools
   (package
     (name "r-summarytools")
-    (version "0.9.8")
+    (version "0.9.9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "summarytools" version))
        (sha256
         (base32
-         "0n7rad6bkfn9cb99wbfzbwl5qzch48r0gafhddfcqvyh4fbn2k0j"))))
+         "0ig7vgjvldbndwhky1bsi38zifr9ji8xvvfqbfffplac08llvrbr"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-base64enc" ,r-base64enc)
@@ -11296,15 +11275,17 @@ netCDF files.")
 (define-public r-biocmanager
   (package
     (name "r-biocmanager")
-    (version "1.30.10")
+    (version "1.30.12")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "BiocManager" version))
        (sha256
-        (base32 "03n9s2vf7vgpgb5alpxwamf9xfkn32cbzngwyn6spq1bnh9a9dzk"))))
+        (base32 "0c2anza01pc36manj3cvycbq8p57qpq18dsimk3y3gpks70hhqf3"))))
     (properties `((upstream-name . "BiocManager")))
     (build-system r-build-system)
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://cran.r-project.org/web/packages/BiocManager/")
     (synopsis "Access the Bioconductor project package repository")
     (description
@@ -11721,19 +11702,21 @@ redundant complex conjugate when the input is real data.")
 (define-public r-tiff
   (package
     (name "r-tiff")
-    (version "0.1-7")
+    (version "0.1-8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tiff" version))
        (sha256
         (base32
-         "101n6x70fr1dhcwx53g3s8q1j4wh93y0388v1s1316f8558rxqxh"))))
+         "18m17g5q3nz4v4wrqxnb129b1j02873g2vknddczkklf1pvq4x2b"))))
     (build-system r-build-system)
     (inputs
      `(("libtiff" ,libtiff)
        ("libjpeg" ,libjpeg-turbo)
        ("zlib" ,zlib)))
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
     (home-page "https://www.rforge.net/tiff/")
     (synopsis "Read and write TIFF images")
     (description
@@ -12635,21 +12618,24 @@ and manipulating sets of ontological terms.")
 (define-public r-gargle
   (package
     (name "r-gargle")
-    (version "1.0.0")
+    (version "1.1.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gargle" version))
        (sha256
         (base32
-         "0hsqn4hf935wn6vk2pwym7la4sdvy271y4cashp38pg4hkpg9zph"))))
+         "03y29dzz54bw9px5k8a72vmc000lcyrkc5l0izkqcciyi9ijkr3w"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-fs" ,r-fs)
+     `(("r-cli" ,r-cli)
+       ("r-fs" ,r-fs)
        ("r-glue" ,r-glue)
        ("r-httr" ,r-httr)
        ("r-jsonlite" ,r-jsonlite)
+       ("r-rappdirs" ,r-rappdirs)
        ("r-rlang" ,r-rlang)
+       ("r-rstudioapi" ,r-rstudioapi)
        ("r-withr" ,r-withr)))
     (native-inputs
      `(("r-knitr" ,r-knitr)))
@@ -12724,14 +12710,14 @@ limitations\" using the GNU Multiple Precision library.")
 (define-public r-rmpfr
   (package
     (name "r-rmpfr")
-    (version "0.8-2")
+    (version "0.8-3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "Rmpfr" version))
        (sha256
         (base32
-         "007pc7fpzl2mcg3qxa2vfjip6m2dr314qjsnybkj3kdj70bszxkl"))))
+         "1m9wwwch9wg886147brr2zfih65yfdfs3vmfvim1w6jykycasc9a"))))
     (properties `((upstream-name . "Rmpfr")))
     (build-system r-build-system)
     (inputs
@@ -13699,14 +13685,14 @@ 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")
@@ -14447,14 +14433,14 @@ 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)
@@ -15149,14 +15135,14 @@ utilities for sequence data management under the ACNUC system.")
 (define-public r-units
   (package
     (name "r-units")
-    (version "0.7-0")
+    (version "0.7-1")
     (source
       (origin
         (method url-fetch)
         (uri (cran-uri "units" version))
         (sha256
           (base32
-            "0kwfcrrbcwl7s50n1wp33vswqzmprh91clvakbd1jpznqpg5m3js"))))
+            "0wwndzjjgqj795xvx1jwa86nwd8adfiwj0pn15yyzzk9baky2axw"))))
     (build-system r-build-system)
     (inputs
      `(("udunits" ,udunits)))
@@ -15302,14 +15288,14 @@ tessellation.")
 (define-public r-sf
   (package
     (name "r-sf")
-    (version "0.9-7")
+    (version "0.9-8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sf" version))
        (sha256
         (base32
-         "175fmnnw11fjhfgjv9sn9b0jfjcqbybpgwsvv99d5yddigvw5jja"))))
+         "096gg2hbynn6mv3w8n69x987fklg5rrgd0d4nbqaw7vhg1jhlmqi"))))
     (build-system r-build-system)
     (inputs
      `(("gdal" ,gdal)
@@ -15339,14 +15325,14 @@ datum transformations.")
 (define-public r-spdep
   (package
     (name "r-spdep")
-    (version "1.1-5")
+    (version "1.1-7")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "spdep" version))
        (sha256
         (base32
-         "0pbd7wrg5v44p2yxsjp774lpyzap3madir5mn5p3ix7ibk7ldjs7"))))
+         "0sg417d95paww625663lgmk6jwhs88djqzc96gbs1hxazlf77qb1"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-boot" ,r-boot)
@@ -15542,13 +15528,13 @@ lspec, polyclass, and polymars.")
 (define-public r-rms
   (package
     (name "r-rms")
-    (version "6.1-1")
+    (version "6.2-0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "rms" version))
        (sha256
-        (base32 "1zgfd60lzbakcv7x0i5k3lkw3s0xx5bzssjgangna5lq2j17cdli"))))
+        (base32 "1di4xvsx0rwkr77nfqiysbg4qf699199xqil70i39d4zwfzqrm8h"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-cluster" ,r-cluster)
@@ -16286,14 +16272,14 @@ packages with Rcpp.")
 (define-public r-tweenr
   (package
     (name "r-tweenr")
-    (version "1.0.1")
+    (version "1.0.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tweenr" version))
        (sha256
         (base32
-         "0sq90pbln6lkc2q3zflhkxxwpqdw5dd7igrxhdnlynkdrmi83mpg"))))
+         "17znizh4yabh2zs9mzyr0sl6p0pw49961i61br7cl1b7v9sza18q"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-farver" ,r-farver)
@@ -17200,14 +17186,14 @@ batch correction, and data correction.")
 (define-public r-styler
   (package
     (name "r-styler")
-    (version "1.3.2")
+    (version "1.4.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "styler" version))
        (sha256
         (base32
-         "1waglhsy2c53qjgd2qhlzda3z0lbzbwx9fkrfhac41y6h91mgkrz"))))
+         "10fj4cnazicb2z9djbv5pszcmrf7wbzagbjvksffqpdc5vbbbw5x"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-backports" ,r-backports)
@@ -17221,6 +17207,8 @@ batch correction, and data correction.")
        ("r-tibble" ,r-tibble)
        ("r-withr" ,r-withr)
        ("r-xfun" ,r-xfun)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/r-lib/styler")
     (synopsis "Non-invasive pretty printing of R code")
     (description
@@ -17474,14 +17462,14 @@ classification and regression models.")
 (define-public r-dae
   (package
     (name "r-dae")
-    (version "3.1-32")
+    (version "3.1-37")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "dae" version))
        (sha256
         (base32
-         "126w1lb9pz8mb2ajl2vz5dj798nbifp0dypnzfgcwixif5g5bpqi"))))
+         "102fgbdpn7yvm1zj180cv4sr1096sz35d4gndsv7w9kriqyi1c1l"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ggplot2" ,r-ggplot2)
@@ -17513,14 +17501,14 @@ been used in the call to @code{aov}.")
 (define-public r-dalex
   (package
     (name "r-dalex")
-    (version "2.1.1")
+    (version "2.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "DALEX" version))
        (sha256
         (base32
-         "1dnqsml94s648w8swsrq8spddnd4mj5pl3q6xxr917w6a1jxgyfz"))))
+         "1qnjbhilv4jfmwqxfi9xc5ysrh8gr84a2a5imjfci7d1n3zcnryn"))))
     (properties `((upstream-name . "DALEX")))
     (build-system r-build-system)
     (propagated-inputs
@@ -19593,14 +19581,14 @@ 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 "5.1-4")
+    (version "6.0-1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gamlss.data" version))
        (sha256
         (base32
-         "1dgfspbmps6ipzcmw681wjdp320nm50dwsxafgrcwxndqgc7fdqd"))))
+         "1cjb2n5i5mnhmb5qbqycdbfg65j7nxb9s74yihqs9kpa39byrzcq"))))
     (properties `((upstream-name . "gamlss.data")))
     (build-system r-build-system)
     (home-page "http://www.gamlss.org/")
@@ -19614,14 +19602,14 @@ models.")
 (define-public r-gamlss
   (package
     (name "r-gamlss")
-    (version "5.3-1")
+    (version "5.3-4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "gamlss" version))
        (sha256
         (base32
-         "1ngf6g4zixwm6ni5r0fs0f6132xd2f2a6mlski9hlqnvvwb46iwr"))))
+         "06mh00jjxnqwknbv777hawjk0zm81ixrp35fg59mrlqz8y3p2w3j"))))
     (properties `((upstream-name . "gamlss")))
     (build-system r-build-system)
     (propagated-inputs
@@ -20825,14 +20813,14 @@ API; see the package vignette for details.")
 (define-public r-actuar
   (package
     (name "r-actuar")
-    (version "3.1-1")
+    (version "3.1-2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "actuar" version))
        (sha256
         (base32
-         "0sxn1mskh7x164f1vbrqnadgxnq7y2p3a9mlmqc0sp6cqkw9lhp9"))))
+         "0gaqm8bkjly2b1jkr1nqnxlp5vqvfpj0a4jd70jv4f9ndlif676y"))))
     (properties `((upstream-name . "actuar")))
     (build-system r-build-system)
     (propagated-inputs `(("r-expint" ,r-expint)))
@@ -20902,14 +20890,14 @@ number embedded in the file rather than the file extension.")
 (define-public r-imager
   (package
     (name "r-imager")
-    (version "0.42.7")
+    (version "0.42.8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "imager" version))
        (sha256
         (base32
-         "1dq0rblnrmnk689bcdmml179gk9lff8x92s2npkjllgjq5q2vfpd"))))
+         "1kzl93l6k9i4528bbycbqxdn28mj7hnx0fbxisva859xl1wys5c5"))))
     (properties `((upstream-name . "imager")))
     (build-system r-build-system)
     (inputs
@@ -21051,14 +21039,14 @@ functions.")
 (define-public r-univoutl
   (package
     (name "r-univoutl")
-    (version "0.2")
+    (version "0.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "univOutl" version))
        (sha256
         (base32
-         "0rlc3w7cx2hfxacpjs9kmjzv5p8v9wxnlpxi3rh276wiy5zdr91v"))))
+         "1hhpxrpmp2wbrynx9xjndnp2sccirgky2x6ksd6yk6phmk0rbzjp"))))
     (properties `((upstream-name . "univOutl")))
     (build-system r-build-system)
     (propagated-inputs
@@ -21266,14 +21254,14 @@ different conceptual parts of the algorithm.")
 (define-public r-shapes
   (package
     (name "r-shapes")
-    (version "1.2.5")
+    (version "1.2.6")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "shapes" version))
        (sha256
         (base32
-         "0gfpdydfysp5mwg7qmkn73s67gvh2szb40mzqrx97h41ijgcgd8s"))))
+         "1p9fr95zk3q2v277c5ksb0nh26mcpzwjzjb2lmag51z6hck8cb66"))))
     (properties `((upstream-name . "shapes")))
     (build-system r-build-system)
     (propagated-inputs
@@ -21890,14 +21878,14 @@ 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
@@ -22066,32 +22054,23 @@ Norwegian, Portuguese, Romanian, Russian, Spanish, Swedish and Turkish.")
 (define-public r-quanteda
   (package
     (name "r-quanteda")
-    (version "2.1.2")
+    (version "3.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "quanteda" version))
        (sha256
         (base32
-         "13rjwgmg5v1dbryrs9ifyy76s5ib6wrbrm2y5af44vhf1h6p9cvy"))))
+         "0b1jfkdhpsg5jhjz4p0nf4cmi9p8w40wv3i2f17jf2x1n1y2hjj8"))))
     (properties `((upstream-name . "quanteda")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-data-table" ,r-data-table)
-       ("r-digest" ,r-digest)
-       ("r-extrafont" ,r-extrafont)
-       ("r-fastmatch" ,r-fastmatch)
-       ("r-ggplot2" ,r-ggplot2)
-       ("r-ggrepel" ,r-ggrepel)
-       ("r-jsonlite" ,r-jsonlite)
+     `(("r-fastmatch" ,r-fastmatch)
        ("r-magrittr" ,r-magrittr)
        ("r-matrix" ,r-matrix)
-       ("r-network" ,r-network)
-       ("r-proxyc" ,r-proxyc)
        ("r-rcpp" ,r-rcpp)
        ("r-rcpparmadillo" ,r-rcpparmadillo)
        ("r-rcppparallel" ,r-rcppparallel)
-       ("r-sna" ,r-sna)
        ("r-snowballc" ,r-snowballc)
        ("r-stopwords" ,r-stopwords)
        ("r-stringi" ,r-stringi)
@@ -22860,14 +22839,14 @@ interesting features. iheatmapr uses the plotly library for interactivity.")
 (define-public r-packrat
   (package
     (name "r-packrat")
-    (version "0.5.0")
+    (version "0.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "packrat" version))
        (sha256
         (base32
-         "1xy5dd2hrpqa07jfl4s7dsrya05mf36ms74j833scdz0zf89586n"))))
+         "01cn2vf95nc8bh0hh8imkn030yra3hx64q1fb8jwsr52p9s397fr"))))
     (properties `((upstream-name . "packrat")))
     (build-system r-build-system)
     (home-page "https://github.com/rstudio/packrat/")
@@ -23536,17 +23515,19 @@ appropriate dog and cat images for many status codes.")
 (define-public r-latex2exp
   (package
     (name "r-latex2exp")
-    (version "0.4.0")
+    (version "0.5.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "latex2exp" version))
               (sha256
                (base32
-                "12nbcgfmv13k6sc6m326ras9bcvy380b7rxcxphn06r3cfkby0zw"))))
+                "0qknpw7zwwbzsbry94j8fn48mq7kq5rc5448g9hybbisain3wfvg"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-stringr" ,r-stringr)
        ("r-magrittr" ,r-magrittr)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/stefano-meschiari/latex2exp/")
     (synopsis "Use LaTeX expressions in plots")
     (description "@code{latex2exp} parses and converts LaTeX math formulas to
@@ -24116,14 +24097,14 @@ 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
@@ -24406,14 +24387,14 @@ input.")
 (define-public r-lightgbm
   (package
     (name "r-lightgbm")
-    (version "3.1.1")
+    (version "3.2.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "lightgbm" version))
        (sha256
         (base32
-         "1pwsh6j9ksahh58b15j5ij56bsc6syy3z4k4a5zhy5n7829rz555"))))
+         "0aw1zcrg7nhddfaif9544hn8g8qcylv6vzpkf8d3kl07nzvgxkvj"))))
     (properties `((upstream-name . "lightgbm")))
     (build-system r-build-system)
     (propagated-inputs
@@ -24442,14 +24423,14 @@ designed to be distributed and efficient with the following goals:
 (define-public r-shapforxgboost
   (package
     (name "r-shapforxgboost")
-    (version "0.1.0")
+    (version "0.1.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "SHAPforxgboost" version))
        (sha256
         (base32
-         "0jgyss9bawl7sf4dwa75sn7ld3mvrrr0z2074lbkq3f5qb9gwsly"))))
+         "106nsf02b1w3yshb55lwnyw1rl1a60162v2wk8znjz3b4ln3mqj5"))))
     (properties
      `((upstream-name . "SHAPforxgboost")))
     (build-system r-build-system)
@@ -24460,9 +24441,10 @@ designed to be distributed and efficient with the following goals:
        ("r-ggforce" ,r-ggforce)
        ("r-ggplot2" ,r-ggplot2)
        ("r-ggpubr" ,r-ggpubr)
-       ("r-lightgbm" ,r-lightgbm)
        ("r-rcolorbrewer" ,r-rcolorbrewer)
        ("r-xgboost" ,r-xgboost)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/liuyanguu/SHAPforxgboost")
     (synopsis "SHAP Plots for XGBoost")
     (description
@@ -24951,28 +24933,22 @@ for spatial data on a linear network.")
 (define-public r-spatstat
   (package
     (name "r-spatstat")
-    (version "1.64-1")
+    (version "2.0-1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "spatstat" version))
        (sha256
         (base32
-         "06jmxfs9kz9qqi3ichfgn8dglwb87kq2nl578p83za5psv8cfgya"))))
+         "1xq11ijc0d0lbixxb3wnvyr4gplfj2d2i64ynsa089xd525zzzbw"))))
     (properties `((upstream-name . "spatstat")))
     (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-core" ,r-spatstat-core)
        ("r-spatstat-data" ,r-spatstat-data)
-       ("r-spatstat-utils" ,r-spatstat-utils)
-       ("r-tensor" ,r-tensor)))
+       ("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
@@ -25607,14 +25583,14 @@ 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
@@ -25625,7 +25601,8 @@ 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")
@@ -25880,6 +25857,45 @@ for finding reasonable values of hyper-parameters in models, pre-processing
 methods, and post-processing steps.")
     (license license:expat)))
 
+(define-public r-workflowsets
+  (package
+    (name "r-workflowsets")
+    (version "0.0.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "workflowsets" version))
+       (sha256
+        (base32
+         "1q41isvj7hhbkx3y8k6kazpiygig92xannsz8dpklh0k3j9l3c2p"))))
+    (properties `((upstream-name . "workflowsets")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-cli" ,r-cli)
+       ("r-dplyr" ,r-dplyr)
+       ("r-ggplot2" ,r-ggplot2)
+       ("r-prettyunits" ,r-prettyunits)
+       ("r-purrr" ,r-purrr)
+       ("r-rlang" ,r-rlang)
+       ("r-rsample" ,r-rsample)
+       ("r-tibble" ,r-tibble)
+       ("r-tidyr" ,r-tidyr)
+       ("r-tune" ,r-tune)
+       ("r-vctrs" ,r-vctrs)
+       ("r-withr" ,r-withr)
+       ("r-workflows" ,r-workflows)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
+    (home-page "https://github.com/tidymodels/workflowsets")
+    (synopsis "Create a collection of tidymodels workflows")
+    (description
+     "A workflow is a combination of a model and preprocessors (e.g, a
+formula, recipe, etc.).  In order to try different combinations of these, an
+object can be created that contains many workflows.  There are functions to
+create workflows en masse as well as training them and visualizing the
+results.")
+    (license license:expat)))
+
 (define-public r-tidyposterior
   (package
     (name "r-tidyposterior")
@@ -26207,6 +26223,32 @@ 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")
@@ -26485,13 +26527,13 @@ other R users.")
 (define-public r-seurat
   (package
     (name "r-seurat")
-    (version "4.0.0")
+    (version "4.0.1")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "Seurat" version))
               (sha256
                (base32
-                "1mp3py00bmzj4541d8ry5sfzkpfzvnl9dpa8n4qhakd13dl30xdn"))))
+                "17cmp9mimvykb8ny796dn1zwmvg0pwwjw1zcixyamc5q1lwnxi3p"))))
     (properties `((upstream-name . "Seurat")))
     (build-system r-build-system)
     (propagated-inputs
@@ -26534,7 +26576,8 @@ other R users.")
        ("r-sctransform" ,r-sctransform)
        ("r-seuratobject" ,r-seuratobject)
        ("r-shiny" ,r-shiny)
-       ("r-spatstat" ,r-spatstat)
+       ("r-spatstat-core" ,r-spatstat-core)
+       ("r-spatstat-geom" ,r-spatstat-geom)
        ("r-tibble" ,r-tibble)
        ("r-uwot" ,r-uwot)))
     (home-page "http://www.satijalab.org/seurat")
@@ -26607,33 +26650,6 @@ include Markov models of discrete and continuous trait evolution and constant
 rate speciation and extinction.")
     (license license:gpl2+)))
 
-(define-public r-absfiltergsea
-  (package
-    (name "r-absfiltergsea")
-    (version "1.5.1")
-    (source
-     (origin
-       (method url-fetch)
-       (uri (cran-uri "AbsFilterGSEA" version))
-       (sha256
-        (base32 "15srxkxsvn38kd5frdrwfdf0ad8gskrd0h01wmdf9hglq8fjrp7w"))))
-    (properties `((upstream-name . "AbsFilterGSEA")))
-    (build-system r-build-system)
-    (propagated-inputs
-     `(("r-biobase" ,r-biobase)
-       ("r-deseq" ,r-deseq)
-       ("r-limma" ,r-limma)
-       ("r-rcpp" ,r-rcpp)
-       ("r-rcpparmadillo" ,r-rcpparmadillo)))
-    (home-page "https://cran.r-project.org/web/packages/AbsFilterGSEA/")
-    (synopsis "Improved false positive control of gene-permuting with absolute filtering")
-    (description
-     "This package provides a function that performs gene-permuting of a gene-set
-enrichment analysis (GSEA) calculation with or without the absolute filtering.
-  Without filtering, users can perform (original) two-tailed or one-tailed
-absolute GSEA.")
-    (license license:gpl2)))
-
 (define-public r-calculus
   (package
     (name "r-calculus")
@@ -26966,14 +26982,14 @@ 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
@@ -26996,13 +27012,13 @@ annealing.")
 (define-public r-mlr3tuning
   (package
     (name "r-mlr3tuning")
-    (version "0.7.0")
+    (version "0.8.0")
     (source (origin
               (method url-fetch)
               (uri (cran-uri "mlr3tuning" version))
               (sha256
                (base32
-                "0xpq16qij05nsfwg0qnfziqjvgk5wn0dgl0sb5gg3qsp1cs6vfqj"))))
+                "16rvsf0jf06yvalydbs7zzn2994hvvyfw975ydiyv3wy1qzgr8bv"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bbotk" ,r-bbotk)
@@ -27295,14 +27311,14 @@ clusterings as resolution increases.")
 (define-public r-textshaping
   (package
     (name "r-textshaping")
-    (version "0.3.1")
+    (version "0.3.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "textshaping" version))
        (sha256
         (base32
-         "16y3amb9cxwq126q1mxssx7kswzalqf9n2437mi5n7q1nqby6wlq"))))
+         "0fqh4z505b2qriqcj70g2hhdgiawd3w2rs9rqxdwizz5vk8jjygx"))))
     (properties `((upstream-name . "textshaping")))
     (build-system r-build-system)
     (inputs
@@ -27565,7 +27581,7 @@ in same length matches).")
       `(("r-data-table" ,r-data-table)
         ("r-slam" ,r-slam)
         ("r-stringi" ,r-stringi)))
-    (home-page "http://github.com/trinker/textshape")
+    (home-page "https://github.com/trinker/textshape")
     (synopsis "Tools for Reshaping Text")
     (description
       "Tools that can be used to reshape and restructure text data.")
@@ -28245,3 +28261,53 @@ 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)))
+
+(define-public r-gsa
+  (package
+    (name "r-gsa")
+    (version "1.03.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "GSA" version))
+       (sha256
+        (base32
+         "05x9wspah1cdznjpncqam1iawsxdiigyl8v2anyhss2k7wwd94p1"))))
+    (properties `((upstream-name . "GSA")))
+    (build-system r-build-system)
+    (home-page "https://statweb.stanford.edu/~tibs/GSA/")
+    (synopsis "Gene set analysis")
+    (description "This package lets you determine the significance of
+pre-defined sets of genes with respect to an outcome variable, such as a group
+indicator, a quantitative variable or a survival time.")
+    ;; Any version of the LGPL
+    (license license:lgpl3+)))
+
+(define-public r-samr
+  (package
+    (name "r-samr")
+    (version "3.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "samr" version))
+       (sha256
+        (base32
+         "01km0f7qgm73x19vbvsxl083hs1dq4dj8qm5h64cxbf20b08my15"))))
+    (properties `((upstream-name . "samr")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-gsa" ,r-gsa)
+       ("r-impute" ,r-impute)
+       ("r-matrixstats" ,r-matrixstats)
+       ("r-openxlsx" ,r-openxlsx)
+       ("r-shiny" ,r-shiny)
+       ("r-shinyfiles" ,r-shinyfiles)))
+    (native-inputs `(("gfortran" ,gfortran)))
+    (home-page "https://statweb.stanford.edu/~tibs/SAM/")
+    (synopsis "Significance analysis of Microarrays")
+    (description
+     "This is a package for significance analysis of Microarrays for
+differential expression analysis, RNAseq data and related problems.")
+    ;; Any version of the LGPL
+    (license license:lgpl3+)))