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Author SHA1 Message Date
Ricardo Wurmus
59706daf02
gnu: r-cytolib: Unbundle boost. 
* gnu/packages/bioconductor.scm (r-cytolib)[source]: Remove bundled copy of
boost.
[arguments]: Change build system to link with existing boost library.
[inputs]: Add boost, openblas, protobuf, and zlib.

Change-Id: I3d1b7d10c80ddaf8ed8eedfe9178ab212ef48e8d
 2024-01-11 17:10:24 +01:00
Ricardo Wurmus
002102983f
gnu: r-singler: Update to 2.4.1. 
* gnu/packages/bioconductor.scm (r-singler): Update to 2.4.1.

Change-Id: I9b914f8194cf3317a3102c03a2cb1970f0583d9e
 2024-01-11 14:41:31 +01:00
Ricardo Wurmus
c04ec0ed02
gnu: r-biocneighbors: Update to 1.20.2. 
* gnu/packages/bioconductor.scm (r-biocneighbors): Update to 1.20.2.

Change-Id: I1b2ee238581afe644ea3916b0bdcc360dae63f9f
 2024-01-11 14:41:31 +01:00
Ricardo Wurmus
6972aba5ea
gnu: r-inspect: Update to 1.32.1. 
* gnu/packages/bioconductor.scm (r-inspect): Update to 1.32.1.
[propagated-inputs]: Remove r-gdata; add r-readxl.

Change-Id: I80ebb3d77076cd5b0cb04d83140098251d608afd
 2024-01-11 14:41:31 +01:00
Ricardo Wurmus
4ca94066f1
gnu: r-genomicalignments: Update to 1.38.1. 
* gnu/packages/bioconductor.scm (r-genomicalignments): Update to 1.38.1.

Change-Id: I5309ec8dd3b464ba54bc94a7d0a5115cc38ecf40
 2024-01-11 14:41:31 +01:00
Ricardo Wurmus
6e21d78b32
gnu: r-edger: Update to 4.0.6. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.6.

Change-Id: Ic2163a951bdfcaf7c54144008ae698b32d5e59a2
 2024-01-11 14:41:31 +01:00
nafkhamdc
c1fda6cf61
gnu: Add r-jaspar2020. 
* gnu/packages/bioconductor.scm (r-jaspar2020): New variable.

Change-Id: I84f0fc2a7defc5d179ffc24aa1f30177cb3b3060
 2024-01-10 18:39:13 +01:00
nafkhamdc
feab3943c1
gnu: Add r-dsb. 
* gnu/packages/bioconductor.scm (r-dsb): New variable.

Change-Id: I34b91da1ae177bd37cfa548c5f6fede453f29bcd
 2024-01-10 18:39:13 +01:00
nafkhamdc
2ec29a8c11
gnu: Add r-escape. 
* gnu/packages/bioconductor.scm (r-escape): New variable.

Change-Id: Ia308f9c90fa81c3304f97daa4f56ae4cd722d5cc
 2024-01-10 18:39:13 +01:00
Ricardo Wurmus
5cec983e04
gnu: r-edger: Update to 4.0.5. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.5.

Change-Id: Ibf41684a81da1a842f1a8e41309113fb50db6ef9
 2024-01-05 17:17:33 +01:00
Ricardo Wurmus
d2a6480e8e
gnu: Add r-scrnaseq. 
* gnu/packages/bioconductor.scm (r-scrnaseq): New variable.

Change-Id: Iee25b59af0000f4d2fd7482183b43404840a336c
 2024-01-05 08:57:53 +01:00
Ricardo Wurmus
e8814809c2
gnu: Add r-toast. 
* gnu/packages/bioconductor.scm (r-toast): New variable.

Change-Id: I922508bce0bdf0304e2f40d93a63ffdb58d03aa6
 2024-01-02 19:23:51 +01:00
Ricardo Wurmus
5b030de386
gnu: Add r-epidish. 
* gnu/packages/bioconductor.scm (r-epidish): New variable.

Change-Id: Ib8ca5980149a5d3eabb3d4a68ae686b855e372d4
 2024-01-02 19:22:13 +01:00
Mădălin Ionel Patrașcu
7593364d70
gnu: Add r-scgate. 
* gnu/packages/bioconductor.scm (r-scgate): New variable.

Change-Id: I441bbea5a68882f5f619dea72abdf84619c9d02f
 2024-01-02 10:19:29 +01:00
Ricardo Wurmus
00e6f55ddb
gnu: r-batchelor: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-batchelor): Update to 1.18.1.

Change-Id: Ic541acacc7e02951f0b2cc6d08d257fe22d7d4b4
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
c8d1f64f40
gnu: r-genomeinfodb: Update to 1.38.5. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.5.

Change-Id: I000bf46cc66ed4a6f1e44b12989326c121acde4c
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
2510849ec9
gnu: r-sparsearray: Update to 1.2.3. 
* gnu/packages/bioconductor.scm (r-sparsearray): Update to 1.2.3.

Change-Id: I5907db78a1261a3dbe0390737cc357bafbdb331e
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
31e882e4b1
gnu: r-genomicscores: Update to 2.14.3. 
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.14.3.

Change-Id: I973721a2ba3a5c5d7e23c4063f363fea7bdfe77e
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
e15b95c126
gnu: r-metapod: Update to 1.10.1. 
* gnu/packages/bioconductor.scm (r-metapod): Update to 1.10.1.

Change-Id: Iafd5b48420d12f9fd02966c83914feb1ef38e510
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
5673484cbc
gnu: r-biocneighbors: Update to 1.20.1. 
* gnu/packages/bioconductor.scm (r-biocneighbors): Update to 1.20.1.

Change-Id: I34aa795404d8c083585f83d5a02810a9005bef32
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
a72c6ba19a
gnu: r-genomeinfodb: Update to 1.38.4. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.4.

Change-Id: Icdd7237e7a4d15a6b9554fca77423148d6f7438e
 2024-01-01 14:35:16 +01:00
Ricardo Wurmus
92f179ab20
gnu: r-tximeta: Update to 1.20.1. 
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.20.1.

Change-Id: Id29bdc8c00f957854ed5ba38c2cbbb91e04bbf78
 2023-12-15 17:47:43 +01:00
Ricardo Wurmus
e19a7ca446
gnu: r-biomvrcns: Update to 1.42.2. 
* gnu/packages/bioconductor.scm (r-biomvrcns): Update to 1.42.2.

Change-Id: I956718d0ecb503546564434fbea82a886d4de9f4
 2023-12-15 17:47:43 +01:00
Ricardo Wurmus
5765ddc666
gnu: r-basilisk: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-basilisk): Update to 1.14.1.

Change-Id: I7c05a536a58ca7bc7d24fdb5f39a420611bebf45
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus
32cd9f9993
gnu: r-basilisk-utils: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-basilisk-utils): Update to 1.14.1.

Change-Id: Icda5e71c0a709e2de4c6303774c37224a9476d62
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus
1b5ffaa960
gnu: r-gviz: Update to 1.46.1. 
* gnu/packages/bioconductor.scm (r-gviz): Update to 1.46.1.

Change-Id: I10e68ee45be2cd2cddc217e75ee6667323c4dd57
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus
280162165b
gnu: r-mscoreutils: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-mscoreutils): Update to 1.14.1.

Change-Id: Ia978e23f1f0bf5a58ffa2c76a65c5f9982629aac
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus
2f14829a7c
gnu: r-sparsearray: Update to 1.2.2. 
* gnu/packages/bioconductor.scm (r-sparsearray): Update to 1.2.2.

Change-Id: I96f367bf5c39c973e1c5fad3b9620bfcaf88417a
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus
aa3e41026a
gnu: r-scater: Update to 1.30.1. 
* gnu/packages/bioconductor.scm (r-scater): Update to 1.30.1.

Change-Id: I5e497b654bc4a26adc6d956f728f31ae631a239c
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus
2fb96bed75
gnu: r-s4vectors: Update to 0.40.2. 
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.40.2.

Change-Id: I6201d17fa2a6be618feb26ad632b9249f87d86c5
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus
ccf2d49837
gnu: r-ucell: Update to 2.6.2. 
* gnu/packages/bioconductor.scm (r-ucell): Update to 2.6.2.

Change-Id: Ie08960a237ad1515332794b23c2bd31e94299dfe
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus
be56597c9d
gnu: r-variancepartition: Update to 1.32.2. 
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.32.2.
[propagated-inputs]: Add r-matrixstats.

Change-Id: I436a1db36ad910aec0fac87150c62735f6509575
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus
bb64a047b4
gnu: r-flowworkspace: Update to 4.14.1. 
* gnu/packages/bioconductor.scm (r-flowworkspace): Update to 4.14.1.

Change-Id: I2e950e77842add2eebeeffac2492ba0ef1aa6422
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus
2ab52103c9
gnu: r-xcms: Update to 4.0.1. 
* gnu/packages/bioconductor.scm (r-xcms): Update to 4.0.1.

Change-Id: I98dd730bb959d2483164177a3e534915d13fee44
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus
e22fc284e3
gnu: r-genomicscores: Update to 2.14.2. 
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.14.2.

Change-Id: I00417ef0c2f9657ec39690baa52a1cd075fb69c6
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus
0d5917604c
gnu: r-dose: Update to 3.28.2. 
* 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
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus
cff731dae5
gnu: r-lefser: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-lefser): Update to 1.12.1.

Change-Id: Iac94395b267e925116929d48abb3c28cff31504e
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus
fcdd57e5fe
gnu: r-zellkonverter: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.12.1.

Change-Id: I0db7450b3eff32e739ea3b806dde96114caba440
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus
01f345225b
gnu: r-variantannotation: Update to 1.48.1. 
* gnu/packages/bioconductor.scm (r-variantannotation): Update to 1.48.1.

Change-Id: I51e6a6db61fc4782823f9a7f85345742b8c7ab72
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus
69126c2b9c
gnu: r-trackviewer: Update to 1.38.1. 
* gnu/packages/bioconductor.scm (r-trackviewer): Update to 1.38.1.

Change-Id: I3ec74e7c37830e7a0b3b12311e304cc2e4fe322e
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus
5a231ed554
gnu: r-tcgautils: Update to 1.22.2. 
* gnu/packages/bioconductor.scm (r-tcgautils): Update to 1.22.2.

Change-Id: I9c33a55076c672fa3a6ff6c97675dee16d186a39
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus
27fab6cfee
gnu: r-rhdf5filters: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-rhdf5filters): Update to 1.14.1.

Change-Id: I260973b51c3a8e895339d1c4b6fbed8f66ccb50c
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus
be49fe22cd
gnu: r-rhdf5: Update to 2.46.1. 
* gnu/packages/bioconductor.scm (r-rhdf5): Update to 2.46.1.

Change-Id: Ia4781476ab82dd867a707e98767d8ee12d208003
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus
0f499ab3b0
gnu: r-msnbase: Update to 2.28.1. 
* gnu/packages/bioconductor.scm (r-msnbase): Update to 2.28.1.

Change-Id: I25fdd2662ab60939732cdee51fc2b53916f1d705
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus
5883f6d17f
gnu: r-genomeinfodb: Update to 1.38.2. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.2.

Change-Id: I17852db375cc7e833d100998c89751e68f3d4362
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus
73e20717d0
gnu: r-edger: Update to 4.0.3. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.3.

Change-Id: I97d73da131092effbf2404e710389d863ba39889
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus
97d988cd23
gnu: r-champ: Update to 2.32.0. 
* gnu/packages/bioconductor.scm (r-champ): Update to 2.32.0.

Change-Id: I2058a0c0b086452ccfae5ef84884aa0b9cf51abb
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus
b77fe732f0
gnu: r-annotationdbi: Update to 1.64.1. 
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.64.1.

Change-Id: If7f6bef70b3f4cc59c81ea68632b36c4b8449a73
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus
96af9a059b
gnu: r-infercnv: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-infercnv): Update to 1.18.1.

Change-Id: I99b0f17246ef267a58f87c1719066b1b4f198d8b
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus
da79581a8f
gnu: r-dmrcate: Update to 2.16.1. 
* gnu/packages/bioconductor.scm (r-dmrcate): Update to 2.16.1.
[propagated-inputs]: Remove r-dss.

Change-Id: I183971826201b19cc88eb2768716aa2e165aba1f
 2023-12-15 17:47:36 +01:00