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2281 commits

Author SHA1 Message Date
Ricardo Wurmus
80b0e79629
gnu: r-abn: Update to 2.6-0. 
* gnu/packages/bioconductor.scm (r-abn): Update to 2.6-0.
[propagated-inputs]: Add r-doparallel and r-foreach.
 2022-01-23 14:01:31 +01:00
Ricardo Wurmus
c486d20dc7
gnu: r-activepathways: Update to 1.0.4. 
* gnu/packages/bioconductor.scm (r-activepathways): Update to 1.0.4.
 2022-01-23 14:01:31 +01:00
Ricardo Wurmus
cadcbbaf65
gnu: r-bigmelon: Add r-knitr. 
* gnu/packages/bioconductor.scm (r-bigmelon)[native-inputs]: Add r-knitr.
 2022-01-21 18:45:27 +01:00
zimoun
65a7a73fd5
gnu: Add r-hgu133plus2-db. 
* gnu/packages/bioconductor.scm (r-hgu133plus2-db): New variable.
 2022-01-21 15:53:17 +01:00
zimoun
a81e20b18a
gnu: Add r-jetset. 
* gnu/packages/bioconductor.scm (r-jetset): New variable.
 2022-01-21 15:53:17 +01:00
zimoun
40042cca73
gnu: r-org-dr-eg-db: Update to 3.14.0. 
* gnu/packages/bioconductor.scm (r-org-dr-eg-db): Update to 3.14.0.
 2022-01-21 15:53:13 +01:00
Ricardo Wurmus
15b509e654
gnu: r-rbowtie: Add missing input. 
* gnu/packages/bioconductor.scm (r-rbowtie)[inputs]: Add zlib.
 2022-01-20 15:25:56 +01:00
Ricardo Wurmus
31a0b086da
gnu: r-pasilla: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-pasilla)[source]: Use bioconductor-uri.
 2022-01-20 12:00:03 +01:00
Ricardo Wurmus
61a1c3f72d
gnu: Add r-transcriptr. 
* gnu/packages/bioconductor.scm (r-transcriptr): New variable.
 2022-01-11 14:48:26 +01:00
Efraim Flashner
c7ef7a0f84
gnu: r-sanssouci: Add source file-name. 
* gnu/packages/bioinformatics.scm (r-sanssourci)[source]: Add file-name
field.
 2022-01-07 11:27:34 +02:00
Ricardo Wurmus
ad82f2a231
gnu: r-tximeta: Update to 1.12.4. 
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.12.4.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
cc16a10005
gnu: r-tcgabiolinks: Update to 2.22.2. 
* gnu/packages/bioconductor.scm (r-tcgabiolinks): Update to 2.22.2.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
2d4ce9bb5f
gnu: r-biodb: Update to 1.2.2. 
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.2.2.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
fdae05747c
gnu: r-sushi: Update to 1.32.0. 
* gnu/packages/bioconductor.scm (r-sushi): Update to 1.32.0.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
76d7f23d04
gnu: r-bioassayr: Update to 1.32.1. 
* gnu/packages/bioconductor.scm (r-bioassayr): Update to 1.32.1.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
04e2461e26
gnu: r-universalmotif: Update to 1.12.2. 
* gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.12.2.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
7ab194b88c
gnu: r-cytolib: Update to 2.6.1. 
* gnu/packages/bioconductor.scm (r-cytolib): Update to 2.6.1.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
489edb479d
gnu: r-clusterprofiler: Update to 4.2.1. 
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.2.1.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
365f04e026
gnu: r-icobra: Update to 1.22.2. 
* gnu/packages/bioconductor.scm (r-icobra): Update to 1.22.2.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
0be8a3e525
gnu: r-destiny: Update to 3.8.0. 
* gnu/packages/bioconductor.scm (r-destiny): Update to 3.8.0.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
7227f93703
gnu: r-diffbind: Update to 3.4.3. 
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.4.3.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
b8dddafa7c
gnu: r-systempiper: Update to 2.0.5. 
* gnu/packages/bioconductor.scm (r-systempiper): Update to 2.0.5.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
013cda4abb
gnu: r-structuralvariantannotation: Update to 1.10.1. 
* gnu/packages/bioconductor.scm (r-structuralvariantannotation): Update to 1.10.1.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
f9288cdf7c
gnu: r-genomicfeatures: Update to 1.46.3. 
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.46.3.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
4fc0a88a91
gnu: r-chipseeker: Update to 1.30.3. 
* gnu/packages/bioconductor.scm (r-chipseeker): Update to 1.30.3.
 2022-01-06 07:49:41 +01:00
Ricardo Wurmus
9bf3a18fb6
gnu: r-biocparallel: Update to 1.28.3. 
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.28.3.
 2022-01-06 07:49:40 +01:00
Ricardo Wurmus
ae00bf2d5e
gnu: r-yapsa: Update to 1.20.1. 
* gnu/packages/bioconductor.scm (r-yapsa): Update to 1.20.1.
[propagated-inputs]: Remove r-pmcmr; add r-pmcmrplus.
 2022-01-06 07:49:37 +01:00
Ricardo Wurmus
231e33d636
gnu: r-activedriverwgs: Update to 1.0.3. 
* gnu/packages/bioconductor.scm (r-activedriverwgs): Update to 1.0.3.
 2022-01-05 21:17:58 +01:00
Ricardo Wurmus
b615af830b
gnu: r-activedriverwgs: Update to 1.1.2. 
* gnu/packages/bioconductor.scm (r-activedriverwgs): Update to 1.1.2.
[propagated-inputs]: Add r-bsgenome-hsapiens-ucsc-hg38,
r-bsgenome-mmusculus-ucsc-mm9, and r-bsgenome-mmusculus-ucsc-mm10.
 2022-01-05 21:17:58 +01:00
Ricardo Wurmus
734e1b185f
gnu: r-valr: Update to 0.6.4. 
* gnu/packages/cran.scm (r-valr): Move from here...
* gnu/packages/bioconductor.scm (r-valr): ...to here.  Update to 0.6.4.
[propagated-inputs]: Add r-rtracklayer.
 2022-01-05 21:17:58 +01:00
Ricardo Wurmus
4b58ebd845
gnu: Add r-singler. 
* gnu/packages/bioconductor.scm (r-singler): New variable.
 2021-12-16 22:46:32 +01:00
Ricardo Wurmus
443110cd86
gnu: Add r-celldex. 
* gnu/packages/bioconductor.scm (r-celldex): New variable.
 2021-12-16 22:46:32 +01:00
Ricardo Wurmus
fa03268c89
gnu: Add r-maftools. 
* gnu/packages/bioconductor.scm (r-maftools): New variable.
 2021-12-14 17:38:16 +01:00
Ricardo Wurmus
9a1ab21b07
gnu: Add r-tcgabiolinks. 
* gnu/packages/bioconductor.scm (r-tcgabiolinks): New variable.
 2021-12-14 17:38:16 +01:00
Ricardo Wurmus
8b0adf9f7e
gnu: Add r-tcgabiolinksgui-data. 
* gnu/packages/bioconductor.scm (r-tcgabiolinksgui-data): New variable.
 2021-12-14 17:38:15 +01:00
Maxim Cournoyer
6dffced09e
Merge branch 'core-updates-frozen' into 'master'. 
At last!
 2021-12-13 16:29:21 -05:00
Ludovic Courtès
e3196755e6
gnu: Further simplify package inputs. 
This is the result of running:

  ./pre-inst-env guix style --input-simplification=safe

and manually undoing changes on a dozen of packages to reduce
rebuilds (derivations for emacs, icecat, and libreoffice are unchanged.)
 2021-12-13 22:15:07 +01:00
Ludovic Courtès
8394619bac
gnu: Simplify package inputs. 
This commit was obtained by running:

  ./pre-inst-env guix style

without any additional argument.
 2021-12-13 17:48:25 +01:00
Mădălin Ionel Patrașcu
5f32468acf
gnu: Add r-chromvarmotifs. 
* gnu/packages/bioconductor.scm (r-chromvarmotifs): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-12-13 13:38:27 +01:00
Ricardo Wurmus
cf2251b9f7
gnu: Add r-sanssouci. 
* gnu/packages/bioconductor.scm (r-sanssouci): New variable.
 2021-12-13 11:17:43 +01:00
Ricardo Wurmus
73d2fb94e3
gnu: Add r-isoformswitchanalyzer. 
* gnu/packages/bioconductor.scm (r-isoformswitchanalyzer): New variable.
 2021-12-13 10:54:16 +01:00
Ricardo Wurmus
495646aa73
gnu: Add r-drimseq. 
* gnu/packages/bioconductor.scm (r-drimseq): New variable.
 2021-12-13 10:54:05 +01:00
Marcel Schilling
531a69ecb6
gnu: Add r-dearseq. 
* gnu/packages/bioconductor.scm (r-dearseq): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-12-13 09:50:58 +01:00
Ricardo Wurmus
8fa7de386c
gnu: r-flowclust: Add gsl. 
* gnu/packages/bioconductor.scm (r-flowclust)[inputs]: Remove accidentally
committed comment character.
 2021-12-03 13:31:32 +01:00
Ricardo Wurmus
c2c63a00de
gnu: Add r-scdblfinder. 
* gnu/packages/bioconductor.scm (r-scdblfinder): New variable.
 2021-12-02 10:03:07 +01:00
Nicolas Vallet
d7477f09c3
gnu: Add r-phyloseq. 
* gnu/packages/cran.scm (r-phyloseq): New variable

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-12-01 09:29:26 +01:00
Ricardo Wurmus
3411f8d512
gnu: Add r-fmcsr. 
* gnu/packages/bioconductor.scm (r-fmcsr): New variable.
 2021-11-30 22:48:07 +01:00
Mădălin Ionel Patrașcu
60abbbf8c5
gnu: Add r-xmapbridge. 
* gnu/packages/bioconductor.scm (r-xmapbridge): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-11-27 10:46:01 +01:00
Mădălin Ionel Patrașcu
aa2aaa65ce
gnu: Add r-xina. 
* gnu/packages/bioconductor.scm (r-xina): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-11-27 10:36:27 +01:00
Mădălin Ionel Patrașcu
c96d8ce720
gnu: Add r-stringdb. 
* gnu/packages/bioconductor.scm (r-stringdb): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-11-27 10:36:27 +01:00