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2023-12-15gnu: r-mscoreutils: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-mscoreutils): Update to 1.14.1. Change-Id: Ia978e23f1f0bf5a58ffa2c76a65c5f9982629aac
2023-12-15gnu: r-sparsearray: Update to 1.2.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-sparsearray): Update to 1.2.2. Change-Id: I96f367bf5c39c973e1c5fad3b9620bfcaf88417a
2023-12-15gnu: r-scater: Update to 1.30.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-scater): Update to 1.30.1. Change-Id: I5e497b654bc4a26adc6d956f728f31ae631a239c
2023-12-15gnu: r-s4vectors: Update to 0.40.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.40.2. Change-Id: I6201d17fa2a6be618feb26ad632b9249f87d86c5
2023-12-15gnu: r-ucell: Update to 2.6.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ucell): Update to 2.6.2. Change-Id: Ie08960a237ad1515332794b23c2bd31e94299dfe
2023-12-15gnu: r-variancepartition: Update to 1.32.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.32.2. [propagated-inputs]: Add r-matrixstats. Change-Id: I436a1db36ad910aec0fac87150c62735f6509575
2023-12-15gnu: r-flowworkspace: Update to 4.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-flowworkspace): Update to 4.14.1. Change-Id: I2e950e77842add2eebeeffac2492ba0ef1aa6422
2023-12-15gnu: r-xcms: Update to 4.0.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-xcms): Update to 4.0.1. Change-Id: I98dd730bb959d2483164177a3e534915d13fee44
2023-12-15gnu: r-genomicscores: Update to 2.14.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.14.2. Change-Id: I00417ef0c2f9657ec39690baa52a1cd075fb69c6
2023-12-15gnu: r-dose: Update to 3.28.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dose): Update to 3.28.2. [propagated-inputs]: Remove r-hpo-db and r-mpo-db; add r-yulab-utils. Change-Id: Ia29d318cac9b1e261fb89fc4d15f8b40ec3583f3
2023-12-15gnu: r-lefser: Update to 1.12.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-lefser): Update to 1.12.1. Change-Id: Iac94395b267e925116929d48abb3c28cff31504e
2023-12-15gnu: r-zellkonverter: Update to 1.12.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.12.1. Change-Id: I0db7450b3eff32e739ea3b806dde96114caba440
2023-12-15gnu: r-variantannotation: Update to 1.48.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-variantannotation): Update to 1.48.1. Change-Id: I51e6a6db61fc4782823f9a7f85345742b8c7ab72
2023-12-15gnu: r-trackviewer: Update to 1.38.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-trackviewer): Update to 1.38.1. Change-Id: I3ec74e7c37830e7a0b3b12311e304cc2e4fe322e
2023-12-15gnu: r-tcgautils: Update to 1.22.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-tcgautils): Update to 1.22.2. Change-Id: I9c33a55076c672fa3a6ff6c97675dee16d186a39
2023-12-15gnu: r-rhdf5filters: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rhdf5filters): Update to 1.14.1. Change-Id: I260973b51c3a8e895339d1c4b6fbed8f66ccb50c
2023-12-15gnu: r-rhdf5: Update to 2.46.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rhdf5): Update to 2.46.1. Change-Id: Ia4781476ab82dd867a707e98767d8ee12d208003
2023-12-15gnu: r-msnbase: Update to 2.28.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-msnbase): Update to 2.28.1. Change-Id: I25fdd2662ab60939732cdee51fc2b53916f1d705
2023-12-15gnu: r-genomeinfodb: Update to 1.38.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.2. Change-Id: I17852db375cc7e833d100998c89751e68f3d4362
2023-12-15gnu: r-edger: Update to 4.0.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.3. Change-Id: I97d73da131092effbf2404e710389d863ba39889
2023-12-15gnu: r-champ: Update to 2.32.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-champ): Update to 2.32.0. Change-Id: I2058a0c0b086452ccfae5ef84884aa0b9cf51abb
2023-12-15gnu: r-annotationdbi: Update to 1.64.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.64.1. Change-Id: If7f6bef70b3f4cc59c81ea68632b36c4b8449a73
2023-12-15gnu: r-infercnv: Update to 1.18.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-infercnv): Update to 1.18.1. Change-Id: I99b0f17246ef267a58f87c1719066b1b4f198d8b
2023-12-15gnu: r-dmrcate: Update to 2.16.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-dmrcate): Update to 2.16.1. [propagated-inputs]: Remove r-dss. Change-Id: I183971826201b19cc88eb2768716aa2e165aba1f
2023-12-15gnu: r-degreport: Update to 1.38.5.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-degreport): Update to 1.38.5. [propagated-inputs]: Add r-dendextend and r-stringi. Change-Id: I73fe47489449b46406b879dba0318d02dc3c7614
2023-12-15gnu: r-cellid: Update to 1.10.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-cellid): Update to 1.10.1. Change-Id: I74f0e39907eb293f84a2ee9d29ef5feab15b698a
2023-12-15gnu: r-biocversion: Update to 3.18.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biocversion): Update to 3.18.1. Change-Id: I844d321dc3716d2658ddd75a81d844f8b302af53
2023-12-15gnu: r-bandits: Update to 1.18.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bandits): Update to 1.18.1. Change-Id: Ied13d156cb7762fd6f86a5a0cccff302b684530d
2023-12-15gnu: r-aseb: Update to 1.46.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-aseb): Update to 1.46.3. Change-Id: I7fb905224840f598261fceba67207cd71e7a73d9
2023-12-15gnu: r-anvil: Update to 1.14.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-anvil): Update to 1.14.1. Change-Id: I2ea83e4a11a1268f222201480563fe1c9ce1060b
2023-12-15gnu: r-agimicrorna: Update to 2.52.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-agimicrorna): Update to 2.52.0. Change-Id: I0f739590d115b5dc354833cdac2ba3c400ddd995
2023-12-15gnu: r-rhdf5lib: Update to 1.24.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rhdf5lib): Update to 1.24.1. [propagated-inputs]: Add r-biocstyle and r-stringr. [native-inputs]: Add r-rmarkdown. Change-Id: I18c06543abee8e4a715f1ef120ce600562804225
2023-12-15gnu: r-reportingtools: Update to 2.42.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-reportingtools): Update to 2.42.3. [source]: Adjust snippet. [arguments]: Use minify-build-system in 'process-javascript phase. [native-inputs]: Remove r-knitr; add r-rmarkdown. Change-Id: I1c00e1a1d8095f40da29b57b8e82de493fcff26e
2023-12-15gnu: r-affycoretools: Update to 1.74.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-affycoretools): Update to 1.74.0. Change-Id: I4197d73e62477bb64182181229c8a33f3048406a
2023-12-15gnu: pyscenic: Update to 0.11.2-1.5f170fd.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (pyscenic): Update to 0.11.2-1.5f170fd. [build-system]: Use pyproject-build-system. [arguments]: Patch setup.py. [propagated-inputs]: Add python-pyarrow. Change-Id: I3acd7c921c2c44741c0afd0bbda011f63ed14c42
2023-12-15gnu: python-ctxcore: Update to 0.2.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (python-ctxcore): Update to 0.2.0. [build-system]: Use pyproject-build-system. [propagated-inputs]: Replace python-pyarrow-0.16 with python-pyarrow. Change-Id: I3f72f9872b438c0a624d23becb5d7828f1986da7
2023-12-15gnu: r-readwriter: Update to 1.5.3-1.91373c4.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-readwriter): Update to 1.5.3-1.91373c4. [propagated-inputs]: Remove r-gdata. Change-Id: Ice16d3b07d7446ca864fd30e46110c9060b83081
2023-12-15gnu: r-stringendo: Update to 0.6.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-stringendo): Update to 0.6.0. [propagated-inputs]: Remove r-devtools and r-usethis; add r-clipr. Change-Id: Iff4a841beb51558ba7d5d8e87ee56e7c3f2b2710
2023-12-15gnu: r-liana: Add missing inputs.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-liana)[propagated-inputs]: Add r-basilisk and r-basilisk-utils. Change-Id: I5dce058a446245e6797cca1c35485f38b3da819a
2023-12-15gnu: python-vaex-core: Add missing input.Ricardo Wurmus
* gnu/packages/python-science.scm (python-vaex-core)[propagated-inputs]: Add python-click. Change-Id: Id91e925832ed107d5b346ba513a9825dc31481f6
2023-12-15gnu: r-desctools: Update to 0.99.52.Ricardo Wurmus
* gnu/packages/statistics.scm (r-desctools): Update to 0.99.52. [propagated-inputs]: Remove r-bh; add r-cli. Change-Id: Idca54e4796494b1d5635412c8f15bf639383ee0a
2023-12-15gnu: r-bayesfactor: Update to 0.9.12-4.6.Ricardo Wurmus
* gnu/packages/statistics.scm (r-bayesfactor): Update to 0.9.12-4.6. Change-Id: Iac17532bb38081a536790af3c5a36ad4791905b9
2023-12-15gnu: r-cairo: Update to 1.6-2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-cairo): Update to 1.6-2. Change-Id: I519f1bef619873d81c38b272251075b4c8c88c68
2023-12-15gnu: r-tclust: Update to 1.5-5.Ricardo Wurmus
* gnu/packages/statistics.scm (r-tclust): Update to 1.5-5. Change-Id: I8526d099efd09fc458deb4feb090eb83671549ea
2023-12-15gnu: r-robust: Update to 0.7-3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-robust): Update to 0.7-3. Change-Id: Ia4908566898547b7d8d14138f776de78f8f4a9fd
2023-12-15gnu: r-pcapp: Update to 2.0-4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-pcapp): Update to 2.0-4. Change-Id: Ie0ad4cd7ddf9c649294f4ba76fc3aa6422f5e81c
2023-12-15gnu: r-robustbase: Update to 0.99-1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-robustbase): Update to 0.99-1. Change-Id: I01fe9d9a24471eaa93439169ad197fbaf54a8446
2023-12-15gnu: r-mclust: Update to 6.0.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-mclust): Update to 6.0.1. Change-Id: Iabc63d21f904d92205db4364053537f580658af5
2023-12-15gnu: r-diptest: Update to 0.77-0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-diptest): Update to 0.77-0. Change-Id: Ic0dcd061fc82a6ef5bc4eb9d222245c00052e0aa
2023-12-15gnu: r-fastica: Update to 1.2-4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-fastica): Update to 1.2-4. Change-Id: Ia0f61d080891317f825837e42aee70e94eff83dc
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