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).
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* 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).
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* 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).
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* 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).
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* 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
14204d696c
gnu: r-genomicfeatures: Update to 1.42.2.
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* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.42.2.
2021-03-15 15:03:08 +01:00
Ricardo Wurmus
f10f2745eb
gnu: r-delayedarray: Update to 0.16.2.
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* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.16.2.
2021-03-15 15:03:08 +01:00
zimoun
bf612ead76
gnu: r-variantannotation: Move to (gnu packages bioconductor).
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* 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).
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* 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).
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* 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).
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* 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).
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* 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).
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* 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).
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* 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).
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* 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).
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* 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
6e0ed09e68
gnu: Add instrain.
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* gnu/packages/bioinformatics.scm (instrain): New variable.
2021-03-15 11:43:20 +01:00
Ricardo Wurmus
ad34eb222c
gnu: Add python-drep.
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* gnu/packages/bioinformatics.scm (python-drep): New variable.
2021-03-15 11:43:20 +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).
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* 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
zimoun
f44079bc21
gnu: r-rbgl: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-rbgl): Move from here...
* gnu/packages/bioconductor.scm (r-rbgl): ...to here.
2021-03-12 14:45:54 +01:00
zimoun
ff92c2873c
gnu: r-annotationforge: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-annotationforge): Move from here...
* gnu/packages/bioconductor.scm (r-annotationforge): ...to here.
2021-03-12 14:45:53 +01:00
zimoun
d769b10714
gnu: r-dexseq: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-dexseq): Move from here...
* gnu/packages/bioconductor.scm (r-dexseq): ...to here.
2021-03-12 14:45:53 +01:00
zimoun
373545855d
gnu: r-deseq2: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-deseq2): Move from here...
* gnu/packages/bioconductor.scm (r-deseq2): ...to here.
2021-03-12 14:45:53 +01:00
zimoun
a35ea5fed9
gnu: r-genefilter: Move to (gnu packages bioconductor).
...
* gnu/packages/bioinformatics.scm (r-genefilter): Move from here...
* gnu/packages/bioconductor.scm (r-genefilter): ...to here.
2021-03-12 14:45:53 +01:00
Efraim Flashner
5ae7414860
gnu: Add bandage.
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* gnu/packages/bioinformatics.scm (bandage): New variable.
2021-03-11 16:54:38 +02:00
Ricardo Wurmus
133a918923
gnu: trim-galore: Update to 0.6.6.
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* gnu/packages/bioinformatics.scm (trim-galore): Update to 0.6.6.
2021-03-09 11:54:59 +01:00
Ricardo Wurmus
49d85b3f11
gnu: bbmap: Update to 38.90.
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* gnu/packages/bioinformatics.scm (bbmap): Update to 38.90.
2021-03-09 11:54:59 +01:00
Nicolas Goaziou
ea8e89292c
gnu: seqan-1: Use HTTPS source URI.
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* gnu/packages/bioinformatics.scm (seqan-1)[source]: Use HTTPS URI.
2021-03-06 16:05:44 +01:00
Nicolas Goaziou
e062572812
gnu: seqan: Use HTTPS home page URI.
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* gnu/packages/bioinformatics.scm (seqan)[home-page]: Use HTTPS URI.
2021-03-06 16:01:24 +01:00
Ricardo Wurmus
f5c3e8e2ec
gnu: Add r-cellchat.
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* gnu/packages/bioinformatics.scm (r-cellchat): New variable.
2021-03-05 15:04:15 +01:00
Tim Howes
dcee10506c
gnu: infernal: Update to 1.1.4.
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* gnu/packages/bioinformatics.scm (infernal): Update to 1.1.4.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-03-03 10:11:51 +02:00
Tim Howes
9f4ffc249f
gnu: hmmer: Update to 3.3.2.
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* gnu/packages/bioinformatics.scm (hmmer): Update to 3.3.2.
Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-03-03 10:11:51 +02:00
Ricardo Wurmus
f21c711a0f
gnu: kallisto: Update to 0.46.2.
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* gnu/packages/bioinformatics.scm (kallisto): Update to 0.46.2.
[source]: Remove bundled htslib sources.
2021-03-02 17:06:58 +01:00
Ricardo Wurmus
cc39e9dbdc
gnu: kallisto: Use older htslib.
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* gnu/packages/bioinformatics.scm (kallisto)[inputs]: Use htslib-1.9 instead
of the latest.
2021-03-02 17:06:58 +01:00
Nicolas Goaziou
3759df574d
gnu: f-seq: Use HTTPS home page URI.
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* gnu/packages/bioinformatics.scm (f-seq)[home-page]: Use HTTPS URI.
2021-02-28 11:03:56 +01:00
Ricardo Wurmus
5d5bbd6fcc
gnu: Add star-for-pigx.
...
This is a follow-up to commit f1f6e49190
2021-02-23 19:40:59 +01:00
Ricardo Wurmus
f1f6e49190
gnu: star: Update to 2.7.8a.
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* gnu/packages/bioinformatics.scm (star): Update to 2.7.8a.
2021-02-22 21:16:19 +01:00
Ricardo Wurmus
f310b06685
gnu: nanopolish: Fix script wrapping.
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* gnu/packages/bioinformatics.scm (nanopolish)[arguments]: Fix wrap-programs
phase.
[inputs]: Add Guile for wrap-script; add bioperl and perl-getopt-long for Perl
scripts.
2021-02-19 23:35:04 +01:00
Ricardo Wurmus
15c0cc4aa2
gnu: Add prinseq.
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* gnu/packages/bioinformatics.scm (prinseq): New variable.
2021-02-19 23:14:59 +01:00
Ricardo Wurmus
80d3150c94
gnu: Add ngshmmalign.
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* gnu/packages/bioinformatics.scm (ngshmmalign): New variable.
2021-02-19 17:24:52 +01:00
Ricardo Wurmus
8360705948
gnu: Add r-archr.
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* gnu/packages/bioinformatics.scm (r-archr): New variable.
2021-02-18 16:11:38 +01:00
Ricardo Wurmus
9904a15a4c
gnu: Add indelfixer.
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* gnu/packages/bioinformatics.scm (indelfixer): New variable.
2021-02-15 13:51:58 +01:00
Mădălin Ionel Patrașcu
160e4a95e7
gnu: bowtie1: Update to 1.3.0.
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* gnu/packages/bioinformatics.scm (bowtie1): Update to 1.3.0.
[arguments]: Set CC in make flags.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2021-02-11 22:29:37 +01:00
Ricardo Wurmus
0e3e26ca60
gnu: r-gage: Update to 2.40.1.
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* gnu/packages/bioinformatics.scm (r-gage): Update to 2.40.1.
2021-02-11 21:33:38 +01:00
