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43960 Commits (6c5790a2faf8ffc401e43b13425a707394e40874)

Author SHA1 Message Date
Ricardo Wurmus 583b4fd6e3
gnu: r-beachmat: Update to 2.0.0. 
* gnu/packages/bioinformatics.scm (r-beachmat): Update to 2.0.0.
[inputs]: Remove hdf5 and zlib.
[propagated-inputs]: Rmeove r-hdf5array, r-rcpp, r-rhdf5, and r-rhdf5lib.
 2019-05-06 00:14:40 +02:00
Ricardo Wurmus 029cefdd90
gnu: r-singlecellexperiment: Update to 1.6.0. 
* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Update to 1.6.0.
 2019-05-06 00:14:40 +02:00
Ricardo Wurmus 70d04dc183
gnu: r-scater: Update to 1.12.0. 
* gnu/packages/bioinformatics.scm (r-scater): Update to 1.12.0.
[propagated-inputs]: Add r-biocneighbors and r-biocsingular; remove r-plyr,
r-reshape2, and r-rhdf5lib.
 2019-05-06 00:14:40 +02:00
Ricardo Wurmus 4540727a21
gnu: r-scran: Update to 1.12.0. 
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.12.0.
[propagated-inputs]: Add r-bh, r-biocsingular, and r-dqrng; remove r-rhdf5lib.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus f2a63d1588
gnu: r-delayedmatrixstats: Update to 1.6.0. 
* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.6.0.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus fbf3494972
gnu: Add r-biocfilecache. 
* gnu/packages/bioconductor.scm (r-biocfilecache): New variable.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus fab5f7c8d9
gnu: r-interactivedisplaybase: Update to 1.22.0. 
* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Update to 1.22.0.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus 975b72fa10
gnu: r-edaseq: Update to 2.18.0. 
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.18.0.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus b765fc4a4c
gnu: r-deseq: Update to 1.36.0. 
* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.36.0.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus 95f3a46630
gnu: r-aroma-light: Update to 3.14.0. 
* gnu/packages/bioinformatics.scm (r-aroma-light): Update to 3.14.0.
 2019-05-06 00:14:39 +02:00
Ricardo Wurmus dd03589939
gnu: r-msnid: Update to 1.18.0. 
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.18.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus b65c264907
gnu: r-msnbase: Update to 2.10.0. 
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.10.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus ee386fcb1a
gnu: r-pcamethods: Update to 1.76.0. 
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.76.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus f955afdabf
gnu: r-mzid: Update to 1.22.0. 
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.22.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus 9421e6b610
gnu: r-vsn: Update to 3.52.0. 
* gnu/packages/bioinformatics.scm (r-vsn): Update to 3.52.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus 15f240e317
gnu: r-affy: Update to 1.62.0. 
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.62.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus fdbaa5c1e5
gnu: r-affyio: Update to 1.54.0. 
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.54.0.
 2019-05-06 00:14:38 +02:00
Ricardo Wurmus 5498cc46b3
gnu: r-mzr: Update to 2.18.0. 
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.18.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus 24aabd8fd9
gnu: r-protgenerics: Update to 1.16.0. 
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.16.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus 10cb9919fc
gnu: r-sva: Update to 3.32.0. 
* gnu/packages/bioinformatics.scm (r-sva): Update to 3.32.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus 59bef6eaee
gnu: r-copywriter: Update to 2.16.0. 
* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.16.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus 70c44443c3
gnu: r-chipseq: Update to 1.34.0. 
* gnu/packages/bioinformatics.scm (r-chipseq): Update to 1.34.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus dbb4aa4a34
gnu: r-annotationfilter: Update to 1.8.0. 
* gnu/packages/bioinformatics.scm (r-annotationfilter): Update to 1.8.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus f6ecdafa11
gnu: r-rhdf5: Update to 2.28.0. 
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.28.0.
 2019-05-06 00:14:37 +02:00
Ricardo Wurmus c030eb50c5
gnu: r-tximport: Update to 1.12.0. 
* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.12.0.
 2019-05-06 00:14:36 +02:00
Ricardo Wurmus 5b65a85949
gnu: r-mutationalpatterns: Update to 1.10.0. 
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.10.0.
 2019-05-06 00:14:36 +02:00
Ricardo Wurmus 45aeb4eb1d
gnu: r-bamsignals: Update to 1.16.0. 
* gnu/packages/bioinformatics.scm (r-bamsignals): Update to 1.16.0.
 2019-05-06 00:14:36 +02:00
Ricardo Wurmus 23ce7f3b0b
gnu: r-rhtslib: Update to 1.16.1. 
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.16.1.
 2019-05-06 00:14:36 +02:00
Ricardo Wurmus c648e672b7
gnu: r-zlibbioc: Update to 1.30.0. 
* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.30.0.
 2019-05-06 00:14:36 +02:00
Ricardo Wurmus 3be113b706
gnu: r-motifrg: Update to 1.28.0. 
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.28.0.
 2019-05-06 00:14:35 +02:00
Ricardo Wurmus a7143246f8
gnu: r-seqlogo: Update to 1.50.0. 
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.50.0.
 2019-05-06 00:14:35 +02:00
Ricardo Wurmus 6ef47ac82e
gnu: r-genomation: Update to 1.16.0. 
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.16.0.
 2019-05-06 00:14:35 +02:00
Ricardo Wurmus d726689a70
gnu: r-seqpattern: Update to 1.16.0. 
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.16.0.
 2019-05-06 00:14:35 +02:00
Ricardo Wurmus 651b62c697
gnu: r-bsgenome: Update to 1.52.0. 
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.52.0.
 2019-05-06 00:14:35 +02:00
Ricardo Wurmus 971df3a784
gnu: r-topgo: Update to 2.36.0. 
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.36.0.
 2019-05-06 00:14:34 +02:00
Ricardo Wurmus d31f8d1bd8
gnu: r-genomicfeatures: Update to 1.36.0. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.0.
 2019-05-06 00:14:34 +02:00
Ricardo Wurmus 40d97367f0
gnu: r-rtracklayer: Update to 1.44.0. 
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.0.
 2019-05-06 00:14:34 +02:00
Ricardo Wurmus 6ff6973502
gnu: r-genomicalignments: Update to 1.20.0. 
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.20.0.
 2019-05-06 00:14:34 +02:00
Ricardo Wurmus 8671d1e9d6
gnu: r-summarizedexperiment: Update to 1.14.0. 
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.14.0.
 2019-05-06 00:14:34 +02:00
Ricardo Wurmus 14561bb9e7
gnu: r-delayedarray: Update to 0.10.0. 
* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.10.0.
[propagated-inputs]: Add r-matrix.
 2019-05-06 00:14:34 +02:00
Ricardo Wurmus d2e165496b
gnu: r-biostrings: Update to 2.52.0. 
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.52.0.
 2019-05-06 00:14:33 +02:00
Ricardo Wurmus e10b67c797
gnu: r-biocparallel: Update to 1.18.0. 
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.18.0.
 2019-05-06 00:14:33 +02:00
Ricardo Wurmus 933571ddcd
gnu: r-biomart: Update to 2.40.0. 
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.0.
 2019-05-06 00:14:33 +02:00
Ricardo Wurmus a1b9378a8e
gnu: r-annotationdbi: Update to 1.46.0. 
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.46.0.
 2019-05-06 00:14:33 +02:00
Ricardo Wurmus 4aadfcd296
gnu: r-biobase: Update to 2.44.0. 
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.44.0.
 2019-05-06 00:14:33 +02:00
Ricardo Wurmus b35bc56a8a
gnu: r-genomicranges: Update to 1.36.0. 
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.36.0.
 2019-05-06 00:14:33 +02:00
Ricardo Wurmus bc0e5bc12e
gnu: r-xvector: Update to 0.24.0. 
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.24.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 5fadf39280
gnu: r-limma: Update to 3.40.0. 
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.40.0.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 0d094ad9ab
gnu: r-variantannotation: Update to 1.30.0. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.30.0.
[propagated-inputs]: Add r-rhtslib.
 2019-05-06 00:14:32 +02:00
Ricardo Wurmus 1e3f53a489
gnu: r-edger: Update to 3.26.0. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.0.
 2019-05-06 00:14:32 +02:00