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Author SHA1 Message Date
Ricardo Wurmus
c73edded1a
gnu: r-allelicimbalance: Update to 1.46.1. 
* gnu/packages/bioconductor.scm (r-allelicimbalance): Update to 1.46.1.

Change-Id: I4af917145424e03ca90831ba71e8f304b5dd49bb
 2025-05-13 14:50:15 +02:00
Ricardo Wurmus
c6a9b298bd
gnu: r-mlinterfaces: Update to 1.88.1. 
* gnu/packages/bioconductor.scm (r-mlinterfaces): Update to 1.88.1.

Change-Id: I2a8f4a08b53fed8ee8f086c66b5ee58df4b22cf6
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
b2af3e05a0
gnu: r-clusterexperiment: Update to 2.28.1. 
* gnu/packages/bioconductor.scm (r-clusterexperiment): Update to 2.28.1.

Change-Id: Ic789105fd575a93da69d68eadf9091583018fd2c
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
bf22c1df8a
gnu: r-enrichplot: Update to 1.28.2. 
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.28.2.

Change-Id: Ib9712ce68e48f747fdd4b5b9a3ee4b4513af0604
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
95b930fc91
gnu: r-minfi: Update to 1.54.1. 
* gnu/packages/bioconductor.scm (r-minfi): Update to 1.54.1.

Change-Id: I997568d0f2cb70a42c72a98b60b74f34a0a97694
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
21d2e4a632
gnu: r-milor: Update to 2.4.1. 
* gnu/packages/bioconductor.scm (r-milor): Update to 2.4.1.

Change-Id: Ie58731e8bf176fde4e5e70e38504dc5b7ef57a45
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
38ba7b801f
gnu: r-scone: Update to 1.32.1. 
* gnu/packages/bioconductor.scm (r-scone): Update to 1.32.1.

Change-Id: I4087316689bb32f7b892b291122ae7a89ff9ace4
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
5984b9ddbb
gnu: r-treesummarizedexperiment: Update to 2.16.1. 
* gnu/packages/bioconductor.scm (r-treesummarizedexperiment): Update to 2.16.1.

Change-Id: I43666115877afe54857a9e93255e725eaaeb9237
 2025-05-13 14:50:14 +02:00
Ricardo Wurmus
fe8e769103
gnu: r-interactionset: Update to 1.36.1. 
* gnu/packages/bioconductor.scm (r-interactionset): Update to 1.36.1.

Change-Id: Ie5687ce5dc1de1d029f156950debbb0e520db17e
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
3e759802a9
gnu: r-variantannotation: Update to 1.54.1. 
* gnu/packages/bioconductor.scm (r-variantannotation): Update to 1.54.1.

Change-Id: I3607250b3db5e6fc99e95f8af79cce1bc24369d2
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
84ae5ddbaf
gnu: r-txdbmaker: Update to 1.4.1. 
* gnu/packages/bioconductor.scm (r-txdbmaker): Update to 1.4.1.

Change-Id: Ia641479de6729e5cda6d8c971b61525e6c3773b6
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
5895ecb5e3
gnu: r-summarizedexperiment: Update to 1.38.1. 
* gnu/packages/bioconductor.scm (r-summarizedexperiment): Update to 1.38.1.

Change-Id: If0b1b287f7fa59b5dd59cfbc1e522d0abe325003
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
bd554c63b8
gnu: r-stager: Update to 1.30.1. 
* gnu/packages/bioconductor.scm (r-stager): Update to 1.30.1.

Change-Id: Iaac5a037e08055c9d6b134fee8823ccdd93587a8
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
717d395a29
gnu: r-trajectoryutils: Update to 1.16.1. 
* gnu/packages/bioconductor.scm (r-trajectoryutils): Update to 1.16.1.

Change-Id: I81f2ccc2ce1dbccb724cacd8ac2bab7747fd1d36
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
fafd4707b6
gnu: r-mosdef: Update to 1.4.1. 
* gnu/packages/bioconductor.scm (r-mosdef): Update to 1.4.1.

Change-Id: I36c395936aa2741d56762f8d4b44c1fac83adcf9
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
dcf2c2a414
gnu: r-raggedexperiment: Update to 1.32.2. 
* gnu/packages/bioconductor.scm (r-raggedexperiment): Update to 1.32.2.

Change-Id: Ic0ef5b5d879cf418ab0929a7322d557d42452ff0
 2025-05-13 14:50:13 +02:00
Ricardo Wurmus
30aa9b1a65
gnu: r-genomicfiles: Update to 1.44.1. 
* gnu/packages/bioconductor.scm (r-genomicfiles): Update to 1.44.1.

Change-Id: I096e8440de2d2b6b5265cca130530d8f821d4e5c
 2025-05-13 14:50:12 +02:00
Ricardo Wurmus
7848e8baae
gnu: r-genomation: Update to 1.40.1. 
* gnu/packages/bioconductor.scm (r-genomation): Update to 1.40.1.

Change-Id: I29f812992afd0832b0a262ad5d8e3aa6d475c3f2
 2025-05-13 14:50:12 +02:00
Ricardo Wurmus
6dd49589c5
gnu: r-enmix: Update to 1.44.1. 
* gnu/packages/bioconductor.scm (r-enmix): Update to 1.44.1.

Change-Id: If69c903e02b3108ef17189bcd0aac3752fa0a7f8
 2025-05-13 14:50:12 +02:00
Ricardo Wurmus
49e3d56a87
gnu: r-edger: Update to 4.6.2. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.6.2.

Change-Id: Ifa116d651fa04cf300de48cd931a2661df609542
 2025-05-13 14:50:12 +02:00
Ricardo Wurmus
5b27dbb67e
gnu: r-dexseq: Update to 1.54.1. 
* gnu/packages/bioconductor.scm (r-dexseq): Update to 1.54.1.

Change-Id: I52f24353dbf1ee9160f17cc0c510a8a172b73905
 2025-05-13 14:50:12 +02:00
Ricardo Wurmus
b3d544ad7e
gnu: r-deseq2: Update to 1.48.1. 
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.48.1.

Change-Id: Ieb18674dab9b016f37b880a06f772fbbdbadddb7
 2025-05-13 14:50:12 +02:00
Ricardo Wurmus
b927cbe70d
gnu: Remove r-snapcgh. 
This package has been removed with the release of Bioconductor 3.19, and it
now fails to build.

* gnu/packages/bioconductor.scm (r-snapcgh): Remove variable.

Change-Id: Id4408ea2d17d07913fea359292eb3e5d7329b13d
 2025-05-12 08:55:51 +02:00
Ricardo Wurmus
f54467968d
gnu: r-tradeseq: Add missing input. 
* gnu/packages/bioconductor.scm (r-tradeseq)[native-inputs]: Add
r-delayedmatrixstats.
[properties]: Record it in updater-extra-native-inputs.

Change-Id: Icc877a48320083d2e5c4987643d52d60c9b11f05
 2025-05-12 08:55:50 +02:00
Ricardo Wurmus
3f3b2e31a8
gnu: r-screpertoire: Disable one more test. 
* gnu/packages/bioconductor.scm (r-screpertoire)[arguments]: Disable one more test.

Change-Id: I9d44fc50137f6e90f69a2e871a375aff192045ae
 2025-05-12 08:55:50 +02:00
Ricardo Wurmus
1ae270f125
gnu: r-scdd: Add missing input. 
* gnu/packages/bioconductor.scm (r-scdd)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-testthat.

Change-Id: Ibd0925b94ae82145055a0b2c5d53f38df202b077
 2025-05-12 08:55:50 +02:00
Ricardo Wurmus
9f17727fd5
gnu: r-classdiscovery: Update to 3.4.8. 
* gnu/packages/bioconductor.scm (r-classdiscovery): Update to 3.4.8.

Change-Id: I8d5c707ae55161cf93bf14ab3a4f87c40000327d
 2025-05-12 08:55:12 +02:00
Ricardo Wurmus
d247e988a8
gnu: r-metap: Update to 1.12. 
* gnu/packages/bioconductor.scm (r-metap): Update to 1.12.

Change-Id: Iad76b9dc0261cad250ed087e64c0490deecafd34
 2025-05-12 08:55:12 +02:00
Ricardo Wurmus
76ba63a8bd
gnu: r-ggpicrust2: Update to 2.1.2. 
* gnu/packages/bioconductor.scm (r-ggpicrust2): Update to 2.1.2.
[propagated-inputs]: Remove r-aldex2, r-circlize, r-deseq2, r-edger, r-ggally, r-lefser,
r-limma, r-maaslin2, r-metagenomeseq, r-microbiomestat, and
r-summarizedexperiment; add r-ggplotify, r-ggraph, r-magrittr,
r-progress, and r-tidygraph.
[native-inputs]: Add r-fgsea, r-ggvenndiagram, r-mockery, and r-upsetr.

Change-Id: I174ff92587f70e46d2c3520c0ff1bbf38e4b8172
 2025-05-12 08:55:12 +02:00
Ricardo Wurmus
94fa3ed421
gnu: r-scgate: Update to 1.7.0. 
* gnu/packages/bioconductor.scm (r-scgate): Update to 1.7.0.

Change-Id: I647cbfc4c289ba8a010e52732b6340856fe1d5b3
 2025-05-12 08:55:12 +02:00
Ricardo Wurmus
fc5e3b794a
gnu: r-pscbs: Update to 0.68.0. 
* gnu/packages/bioconductor.scm (r-pscbs): Update to 0.68.0.
[propagated-inputs]: Remove r-listenv.
[native-inputs]: Remove r-r-devices.

Change-Id: Ib198ca104b43c77790c258e8c53fcc34f2b521a1
 2025-05-12 08:55:12 +02:00
Ricardo Wurmus
1a5c48351e
gnu: r-dsb: Update to 2.0.0. 
* gnu/packages/bioconductor.scm (r-dsb): Update to 2.0.0.
[native-inputs]: Add r-spelling.

Change-Id: I1fdebc33bb8a57057b5b8a2ab8b4e401e5631c97
 2025-05-12 08:55:12 +02:00
Ricardo Wurmus
880c0191a5
gnu: r-dmrcate: Update to 3.4.0. 
* gnu/packages/bioconductor.scm (r-dmrcate): Update to 3.4.0.

Change-Id: I60622a7c030ec5005a7decaf6f0e8cd77023b715
 2025-05-12 08:55:11 +02:00
Ricardo Wurmus
7597115cc9
gnu: r-sesamedata: Update to 1.26.0. 
* gnu/packages/bioconductor.scm (r-sesamedata): Update to 1.26.0.

Change-Id: I3ed54ced025597402321b550808686ad2d9175bd
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
5cae934a8c
gnu: r-rtcga-rnaseq: Update to 20151101.38.0. 
* gnu/packages/bioconductor.scm (r-rtcga-rnaseq): Update to 20151101.38.0.

Change-Id: I5152b9bca7c12d968bbdf95a84b8874134f15b11
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
14f8453677
gnu: r-rnbeads-hg19: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-rnbeads-hg19): Update to 1.40.0.

Change-Id: I37638d96b655cd1c91769d9e6ba332ae09695c39
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
d2ab8c7909
gnu: r-rnaseqdata-hnrnpc-bam-chr14: Update to 0.46.0. 
* gnu/packages/bioconductor.scm (r-rnaseqdata-hnrnpc-bam-chr14): Update to 0.46.0.

Change-Id: I6032eec74f1b93c4b44492b03fbcf270999f4cae
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
e9dacafe12
gnu: r-parathyroidse: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-parathyroidse): Update to 1.46.0.

Change-Id: I3408aa5f9e5d5f0f67520e18b34989621d419497
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
a2958d750b
gnu: r-curatedtcgadata: Update to 1.30.0. 
* gnu/packages/bioconductor.scm (r-curatedtcgadata): Update to 1.30.0.

Change-Id: Ia427cb0b63ba1089d717e7efdb73ff8826bcf07d
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
ef204b63e1
gnu: r-gagedata: Update to 2.46.0. 
* gnu/packages/bioconductor.scm (r-gagedata): Update to 2.46.0.

Change-Id: I5fc2489891207fbb249651d0b56eff7c75274cca
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
7bcd5c266b
gnu: r-prolocdata: Update to 1.46.0. 
* gnu/packages/bioconductor.scm (r-prolocdata): Update to 1.46.0.

Change-Id: I87cd79a11f9a1de302b7c3b7314918964a0c0143
 2025-05-12 08:55:10 +02:00
Ricardo Wurmus
280a808407
gnu: r-minionsummarydata: Update to 1.38.0. 
* gnu/packages/bioconductor.scm (r-minionsummarydata): Update to 1.38.0.

Change-Id: I978ac23b9ae0c69873d569d64cbce2a40b9b919e
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
b4036c29e3
gnu: r-minfidataepic: Update to 1.34.0. 
* gnu/packages/bioconductor.scm (r-minfidataepic): Update to 1.34.0.

Change-Id: I5eac84d1db0b985140ff85bd580379405f1af78d
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
2b72597f1d
gnu: r-mousegastrulationdata: Update to 1.22.0. 
* gnu/packages/bioconductor.scm (r-mousegastrulationdata): Update to 1.22.0.

Change-Id: I716e7325f77c65cc61f0914ef5ac5bb98e9f6410
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
eb298a4517
gnu: r-methylclockdata: Update to 1.16.0. 
* gnu/packages/bioconductor.scm (r-methylclockdata): Update to 1.16.0.

Change-Id: Ie97c9e54f2a60b5132f2fd4f08d60602e0ff23d5
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
c9763f059f
gnu: r-methylaiddata: Update to 1.40.0. 
* gnu/packages/bioconductor.scm (r-methylaiddata): Update to 1.40.0.

Change-Id: I27fe623dde66a088b9567a6c459c03d6c4d822ca
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
7b52d2c776
gnu: r-macrophage: Update to 1.24.0. 
* gnu/packages/bioconductor.scm (r-macrophage): Update to 1.24.0.

Change-Id: I9f7cd0b50543930a4c06f5f0d0067af1d6c82483
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
d6d559c4ab
gnu: r-golubesets: Update to 1.50.0. 
* gnu/packages/bioconductor.scm (r-golubesets): Update to 1.50.0.

Change-Id: I84daae58a4d84b578f0881cd5a7346966530de99
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
9046e17e02
gnu: r-genelendatabase: Update to 1.44.0. 
* gnu/packages/bioconductor.scm (r-genelendatabase): Update to 1.44.0.

Change-Id: I834018e74e1ef8ca5c21003a1eb30bbe9c9997d8
 2025-05-12 08:55:09 +02:00
Ricardo Wurmus
30bec76b00
gnu: r-derfinderdata: Update to 2.26.0. 
* gnu/packages/bioconductor.scm (r-derfinderdata): Update to 2.26.0.

Change-Id: I9db140c44040670c4c2e44a8aaef2b65c24e2831
 2025-05-12 08:55:09 +02:00