zimoun
c2a18aee16
gnu: r-motifrg: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-motifrg): Move from here...
* gnu/packages/bioconductor.scm (r-motifrg): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
621aa3b442
gnu: r-sva: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-sva): Move from here...
* gnu/packages/bioconductor.scm (r-sva): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
900ef8fb1e
gnu: r-protgenerics: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-protgenerics): Move from here...
* gnu/packages/bioconductor.scm (r-protgenerics): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
720d2694a5
gnu: r-mzr: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-mzr): Move from here...
* gnu/packages/bioconductor.scm (r-mzr): ...to here.
2021-05-31 15:38:00 +02:00
zimoun
88cf24febb
gnu: r-ensembldb: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-ensembldb): Move from here...
* gnu/packages/bioconductor.scm (r-ensembldb): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
fea33b9d1e
gnu: r-biovizbase: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-biovizbase): Move from here...
* gnu/packages/bioconductor.scm (r-biovizbase): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
8d4311bb8e
gnu: r-vsn: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-vsn): Move from here...
* gnu/packages/bioconductor.scm (r-vsn): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
96ae9822c4
gnu: r-affyio: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-affyio): Move from here...
* gnu/packages/bioconductor.scm (r-affyio): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
8182e6a6fd
gnu: r-organismdbi: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-organismdbi): Move from here...
* gnu/packages/bioconductor.scm (r-organismdbi): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
d1ea2b7c8b
gnu: r-dirichletmultinomial: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Move from here...
* gnu/packages/bioconductor.scm (r-dirichletmultinomial): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
0b5b41c561
gnu: r-genomicfiles: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-genomicfiles): Move from here...
* gnu/packages/bioconductor.scm (r-genomicfiles): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
ff65fa90d2
gnu: r-complexheatmap: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-complexheatmap): Move from here...
* gnu/packages/bioconductor.scm (r-complexheatmap): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
84019edf38
gnu: r-gage: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-gage): Move from here...
* gnu/packages/bioconductor.scm (r-gage): ...to here.
2021-05-31 15:37:59 +02:00
zimoun
d0a5503752
gnu: r-keggrest: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-keggrest): Move from here...
* gnu/packages/bioconductor.scm (r-keggrest): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
22cda2e432
gnu: r-affy: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-affy): Move from here...
* gnu/packages/bioconductor.scm (r-affy): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
32ae36e96f
gnu: r-fastseg: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-fastseg): Move from here...
* gnu/packages/bioconductor.scm (r-fastseg): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
9644745692
gnu: r-annotationhub: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-annotationhub): Move from here...
* gnu/packages/bioconductor.scm (r-annotationhub): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
dfe6224f5f
gnu: r-interactivedisplaybase: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Move from here...
* gnu/packages/bioconductor.scm (r-interactivedisplaybase): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
f6f43a2d40
gnu: r-edaseq: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-edaseq): Move from here...
* gnu/packages/bioconductor.scm (r-edaseq): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
ef954bb488
gnu: r-deseq: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-deseq): Move from here...
* gnu/packages/bioconductor.scm (r-deseq): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
bb118f20fe
gnu: r-aroma-light: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-aroma-light): Move from here...
* gnu/packages/bioconductor.scm (r-aroma-light): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
7756e08b44
gnu: r-mzid: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-mzid): Move from here...
* gnu/packages/bioconductor.scm (r-mzid): ...to here.
2021-05-31 15:37:58 +02:00
zimoun
ad46c8aa7f
gnu: r-pcamethods: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-pcamethods): Move from here...
* gnu/packages/bioconductor.scm (r-pcamethods): ...to here.
2021-05-31 15:37:57 +02:00
zimoun
d7fa9c1ffd
gnu: r-genomationdata: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-genomationdata): Move from here...
* gnu/packages/bioconductor.scm (r-genomationdata): ...to here.
[source]: Replace 'string-append' by 'bioconductor-uri' with 'experiment.
2021-05-31 15:37:55 +02:00
zimoun
f8fe5497c7
gnu: r-genomation: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-genomation): Move from here...
* gnu/packages/bioconductor.scm (r-genomation): ...to here.
2021-05-31 15:36:32 +02:00
zimoun
f3b50aa4fd
gnu: r-go-db: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-go-db): Move from here...
* gnu/packages/bioconductor.scm (r-go-db): ...to here.
[source]: Replace 'string-append' by 'bioconductor-uri' with 'annotation.
2021-05-31 15:35:53 +02:00
zimoun
14fb30e5f6
gnu: r-seqpattern: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-seqpattern): Move from here...
* gnu/packages/bioconductor.scm (r-seqpattern): ...to here.
2021-05-31 15:35:30 +02:00
zimoun
b832fddbfc
gnu: r-impute: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-impute): Move from here...
* gnu/packages/bioconductor.scm (r-impute): ...to here.
2021-05-31 15:34:45 +02:00
zimoun
4f030cc0db
gnu: r-msnbase: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-msnbase): Move from here...
* gnu/packages/bioconductor.scm (r-msnbase): ...to here.
2021-05-31 15:34:44 +02:00
zimoun
8c7c78bfce
gnu: r-msnid: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-msnid): Move from here...
* gnu/packages/bioconductor.scm (r-msnid): ...to here.
2021-05-31 15:34:44 +02:00
zimoun
537d48d869
gnu: r-bsgenome: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-bsgenome): Move from here...
* gnu/packages/bioconductor.scm (r-bsgenome): ...to here.
2021-05-31 15:34:44 +02:00
zimoun
90bbab5cff
gnu: r-topgo: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-topgo): Move from here...
* gnu/packages/bioconductor.scm (r-topgo): ...to here.
2021-05-31 15:34:44 +02:00
zimoun
f78ff75b41
gnu: r-genomicfeatures: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-genomicfeatures): Move from here...
* gnu/packages/bioconductor.scm (r-genomicfeatures): ...to here.
2021-05-31 15:34:44 +02:00
zimoun
a88230a1bc
gnu: r-rtracklayer: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-rtracklayer): Move from here...
* gnu/packages/bioconductor.scm (r-rtracklayer): ...to here.
2021-05-31 15:34:44 +02:00
zimoun
ca1a015777
gnu: r-genomicalignments: Move to (gnu packages bioconductor).
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* gnu/packages/bioinformatics.scm (r-genomicalignments): Move from here...
* gnu/packages/bioconductor.scm (r-genomicalignments): ...to here.
2021-05-31 15:34:39 +02:00
Ricardo Wurmus
e3cde9aaf8
gnu: Add mosaicatcher.
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* gnu/packages/patches/mosaicatcher-unbundle-htslib.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/bioinformatics.scm (mosaicatcher): New variable.
2021-05-29 07:26:15 +02:00
Christopher Baines
6417b97c7e
Revert "gnu: Add mosaicatcher."
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mosaicatcher-unbundle-htslib.patch is missing.
This reverts commit b1ae0f30d8
2021-05-29 01:21:14 +01:00
Ricardo Wurmus
b1ae0f30d8
gnu: Add mosaicatcher.
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* gnu/packages/bioinformatics.scm (mosaicatcher): New variable.
2021-05-28 23:00:47 +02:00
Roel Janssen
87c9f63fce
gnu: Add python-pyega3.
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* gnu/packages/bioinformatics.scm (python-pyega3): New variable.
2021-05-27 23:01:35 +02:00
Roel Janssen
a30e616ccc
gnu: Add python-htsget.
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* gnu/packages/bioinformatics.scm (python-htsget): New variable.
2021-05-27 22:50:46 +02:00
Efraim Flashner
c5f7203e3e
gnu: minimap2: Install more files.
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* gnu/packages/bioinformatics.scm (minimap2)[arguments]: Add modules.
Adjust custom 'install phase to also install library, headers and a
pkg-config file.
2021-05-26 15:22:10 +03:00
Efraim Flashner
36a90d0637
gnu: minimap2: Update to 2.18.
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* gnu/packages/bioinformatics.scm (minimap2): Update to 2.18.
[source]: Remove patch.
* gnu/packages/patches/minimap2-aarch64-support.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2021-05-26 15:22:10 +03:00
Roel Janssen
af163badb4
gnu: Add r-phantompeakqualtools.
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* gnu/packages/bioinformatics.scm (r-phantompeakqualtools): New variable.
2021-05-26 09:34:37 +02:00
Roel Janssen
b1fee8a003
gnu: Add r-spp.
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* gnu/packages/bioinformatics.scm (r-spp): New variable.
2021-05-26 09:29:01 +02:00
Ricardo Wurmus
7ff515aa51
gnu: r-rhdf5filters: Update to 1.2.1.
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* gnu/packages/bioinformatics.scm (r-rhdf5filters): Update to 1.2.1.
2021-05-20 14:43:34 +02:00
Ricardo Wurmus
48b8a5e701
gnu: pigx-chipseq: Update to 0.0.52.
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* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.52.
2021-05-17 18:45:55 +02:00
Ricardo Wurmus
848126d008
gnu: prinseq: Fix references to perl executable.
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* gnu/packages/bioinformatics.scm (prinseq)[arguments]: Embed concrete
references to the "perl" executable.
2021-05-14 17:11:52 +02:00
Ricardo Wurmus
9b99b6d947
gnu: Add ensembl-vep.
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* gnu/packages/bioinformatics.scm (ensembl-vep): New variable.
2021-05-07 08:52:49 +02:00
Ricardo Wurmus
ce7b202f9b
gnu: Add perl-bio-db-hts.
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* gnu/packages/bioinformatics.scm (perl-bio-db-hts): New variable.
2021-05-06 18:56:24 +02:00
Ricardo Wurmus
da7f89c737
gnu: python-pybedtools: Update to 0.8.2.
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* gnu/packages/bioinformatics.scm (python-pybedtools): Update to 0.8.2.
[arguments]: Remove outdated substitutions; simplify check phase.
2021-05-05 16:18:13 +02:00
