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version-1.3.0
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1306 Commits

Author SHA1 Message Date
hli eb8da54170 gnu: Add r-txdb-dmelanogaster-ucsc-dm6-ensgene. 
* gnu/packages/bioconductor.scm (r-txdb-dmelanogaster-ucsc-dm6-ensgene):
New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2021-04-12 18:25:40 +02:00
Tobias Geerinckx-Rice 48358a25ca gnu: r-gagedata: Fix typo in synopsis. 
* gnu/packages/bioconductor.scm (r-gagedata)[synopsis]: Fix typo and add
article.
 2021-04-10 14:11:34 +02:00
Tobias Geerinckx-Rice 04a5e7918d gnu: r-chromstar: Fix typo in description. 
* gnu/packages/bioconductor.scm (r-chromstar)[description]: Fix typo.
 2021-04-10 14:11:32 +02:00
Tobias Geerinckx-Rice 37d4706166 gnu: r-msmstests: Fix typos in description. 
* gnu/packages/bioconductor.scm (r-msmstests)[description]: Fix typos.
 2021-04-10 14:11:29 +02:00
Ricardo Wurmus e0147aa46f gnu: r-gviz: Update to 1.34.1. 
* gnu/packages/bioconductor.scm (r-gviz): Update to 1.34.1.
 2021-04-08 13:28:24 +02:00
Ricardo Wurmus 14a4c30828 gnu: r-universalmotif: Update to 1.8.4. 
* gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.8.4.
 2021-04-08 13:28:24 +02:00
Ricardo Wurmus 8a7933f37e gnu: r-rsubread: Update to 2.4.3. 
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.4.3.
 2021-04-08 13:28:24 +02:00
Ricardo Wurmus 215b0ced02 gnu: r-chippeakanno: Update to 3.24.2. 
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.24.2.
[propagated-inputs]: Add r-dplyr.
 2021-04-08 13:28:24 +02:00
Ricardo Wurmus 55185f9b3f gnu: r-diffbind: Update to 3.0.15. 
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.0.15.
 2021-04-08 13:28:24 +02:00
Ricardo Wurmus 9d2ca98213 gnu: r-genomeinfodb: Update to 1.26.6. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.26.6.
 2021-04-08 13:28:24 +02:00
Ricardo Wurmus fb73d7d10d gnu: r-delayedarray: Update to 0.16.3. 
* gnu/packages/bioconductor.scm (r-delayedarray): Update to 0.16.3.
 2021-04-08 13:28:23 +02:00
zimoun 23686ba3eb Revert "Revert some commits that caused guix pull to fail." 
This reverts commit 8ec0ca8faf.
 2021-03-31 21:23:45 +02:00
zimoun 9282218508 gnu: r-absfiltergsea: Move to (gnu packages bioconductor). 
* gnu/packages/cran.scm (r-absfiltergsea): Move this variable from here...
* gnu/packages/bioconductor.scm (r-absfiltergsea): ...to here.
 2021-03-31 21:23:45 +02:00
zimoun 172b85aa99 gnu: r-bisquerna: Move to (gnu packages bioconductor). 
* gnu/packages/cran.scm (r-bisquerna): Move this variable from here...
* gnu/packages/bioconductor.scm (r-bisquerna): ...to here.
 2021-03-31 21:23:45 +02:00
Hong Li 0ff888108a gnu: Add r-chromstar. 
* gnu/packages/bioconductor.scm (r-chromstar): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2021-03-22 14:27:13 +01:00
Hong Li 1f958631ef gnu: Add r-chromstardata. 
* gnu/packages/bioconductor.scm (r-chromstardata): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2021-03-22 14:26:58 +01:00
Leo Famulari 8ec0ca8faf Revert some commits that caused guix pull to fail. 
This reverts commits 821e643921 through
8f9fd9b70c.

Specifically, these commits caused the build failure of
guix-package-cache.drv like this:

------
(repl-version 0 1 1)
Generating package cache for '/gnu/store/vyz7q26kxxd4z70m24rkkqqhaizdla7g-profile'...
(exception unbound-variable (value #f) (value "Unbound variable: ~S") (value (r-biobase)) (value #f))
 2021-03-15 19:52:34 -04:00
Ricardo Wurmus 8f9fd9b70c gnu: r-biocparallel: Build reproducibly. 
* gnu/packages/bioconductor.scm (r-biocparallel)[arguments]: Add phase
"make-reproducible".
 2021-03-15 23:31:58 +01:00
zimoun d99a18252c gnu: r-delayedarray: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-delayedarray): Move from here...
* gnu/packages/bioconductor.scm (r-delayedarray): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun adf45daae9 gnu: r-rsamtools: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-rsamtools): Move from here...
* gnu/packages/bioconductor.scm (r-rsamtools): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun b1a19ab6e2 gnu: r-biostrings: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-biostrings): Move from here...
* gnu/packages/bioconductor.scm (r-biostrings): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun eab9807fb3 gnu: r-biocparallel: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-biocparallel): Move from here...
* gnu/packages/bioconductor.scm (r-biocparallel): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun c11b541fba gnu: r-biomart: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-biomart): Move from here...
* gnu/packages/bioconductor.scm (r-biomart): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun 16c7e79ebb gnu: r-annotationdbi: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-annotationdbi): Move from here...
* gnu/packages/bioconductor.scm (r-annotationdbi): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun 457de7f401 gnu: r-biobase: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-biobase): Move from here...
* gnu/packages/bioconductor.scm (r-biobase): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun f3f09b99cd gnu: r-genomicranges: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-genomicranges): Move from here...
* gnu/packages/bioconductor.scm (r-genomicranges): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun e56b3db82e gnu: r-xvector: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-xvector): Move from here...
* gnu/packages/bioconductor.scm (r-xvector): ...to here.
 2021-03-15 23:30:26 +01:00
zimoun 821e643921 gnu: r-limma: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-limma): Move from here...
* gnu/packages/bioconductor.scm (r-limma): ...to here.
 2021-03-15 23:30:26 +01:00
Ricardo Wurmus 1ada8ea96c gnu: r-scater: Update to 1.18.6. 
* gnu/packages/bioconductor.scm (r-scater): Update to 1.18.6.
 2021-03-15 15:03:08 +01:00
Ricardo Wurmus fa6bb614c8 gnu: r-cytoml: Update to 2.2.2. 
* gnu/packages/bioconductor.scm (r-cytoml): Update to 2.2.2.
[inputs]: Add zlib.
 2021-03-15 15:03:08 +01:00
Ricardo Wurmus 11dc49afc2 gnu: r-diffbind: Update to 3.0.14. 
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.0.14.
 2021-03-15 15:03:07 +01:00
Ricardo Wurmus ee61edb621 gnu: r-reportingtools: Update to 2.30.2. 
* gnu/packages/bioconductor.scm (r-reportingtools): Update to 2.30.2.
 2021-03-15 15:03:07 +01:00
Ricardo Wurmus fa227c9640 gnu: r-genomeinfodb: Update to 1.26.4. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.26.4.
 2021-03-15 15:03:07 +01:00
Ricardo Wurmus b45c625f10 gnu: r-deseq2: Update to 1.30.1. 
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.30.1.
 2021-03-15 15:03:07 +01:00
zimoun bf612ead76 gnu: r-variantannotation: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-variantannotation): Move from here...
* gnu/packages/bioconductor.scm (r-variantannotation): ...to here.
 2021-03-15 14:06:24 +01:00
zimoun 082f3c5433 gnu: r-edger: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-edger): Move from here...
* gnu/packages/bioconductor.scm (r-edger): ...to here.
 2021-03-15 14:06:16 +01:00
zimoun 35b62c044e gnu: r-genomeinfodb: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Move from here...
* gnu/packages/bioconductor.scm (r-genomeinfodb): ...to here.
 2021-03-15 14:05:56 +01:00
zimoun 8d6d75ff39 gnu: r-genomeinfodbdata: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Move from here...
* gnu/packages/bioconductor.scm (r-genomeinfodbdata): ...to here.
[source]: Use 'bioconductor-uri'.
 2021-03-15 14:05:47 +01:00
zimoun 9949f459bf gnu: r-iranges: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-iranges): Move from here...
* gnu/packages/bioconductor.scm (r-iranges): ...to here.
 2021-03-15 14:05:37 +01:00
zimoun d64e3a487b gnu: r-s4vectors: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-s4vectors): Move from here...
* gnu/packages/bioconductor.scm (r-s4vectors): ...to here.
 2021-03-15 14:05:27 +01:00
zimoun 852fa82d4c gnu: r-bioccheck: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-bioccheck): Move from here...
* gnu/packages/bioconductor.scm (r-bioccheck): ...to here.
 2021-03-15 14:05:22 +01:00
zimoun d5576b6eb7 gnu: r-grohmm: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-grohmm): Move from here...
* gnu/packages/bioconductor.scm (r-grohmm): ...to here.
 2021-03-15 14:04:26 +01:00
zimoun 5ac55aea8b gnu: r-biocstyle: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-biocstyle): Move from here...
* gnu/packages/bioconductor.scm (r-biocstyle): ...to here.
 2021-03-15 14:03:21 +01:00
zimoun 134404b437 gnu: r-biocviews: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-biocviews): Move from here...
* gnu/packages/bioconductor.scm (r-biocviews): ...to here.
 2021-03-15 14:03:18 +01:00
Ricardo Wurmus 3eeb7dbf04 gnu: r-gkmsvm: Move back to (gnu packages cran). 
* gnu/packages/bioconductor.scm (r-gkmsvm): Move this variable from here...
* gnu/packages/cran.scm (r-gkmsvm): ...to here.
 2021-03-15 12:15:18 +01:00
zimoun df6b3c25bb gnu: r-systempiper: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-systempiper): Move from here...
* gnu/packages/bioconductor.scm (r-systempiper): ...to here.
 2021-03-12 14:45:55 +01:00
zimoun 8957efa8ef gnu: r-shortread: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-shortread): Move from here...
* gnu/packages/bioconductor.scm (r-shortread): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun 2a97057688 gnu: r-gostats: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-gostats): Move from here...
* gnu/packages/bioconductor.scm (r-gostats): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun 4e7cf96c9f gnu: r-category: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-category): Move from here...
* gnu/packages/bioconductor.scm (r-category): ...to here.
 2021-03-12 14:45:54 +01:00
zimoun 031fdda47a gnu: r-gseabase: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-gseabase): Move from here...
* gnu/packages/bioconductor.scm (r-gseabase): ...to here.
 2021-03-12 14:45:54 +01:00