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| author | Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> | 2016-09-21 22:45:41 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2016-09-26 07:47:55 +0200 |
| commit | f3cfe4515ad747fe64999b9904d9866ef0921081 (patch) | |
| tree | c9bc03be7bf5224ae058194f49999db444a7643b /gnu | |
| parent | 684f29bd2e7ae7d51be4b873a01bf0836c3fa64b (diff) | |
| download | patches-f3cfe4515ad747fe64999b9904d9866ef0921081.tar patches-f3cfe4515ad747fe64999b9904d9866ef0921081.tar.gz | |
gnu: Add r-txdb-hsapiens-ucsc-hg19-knowngene.
* gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene):
New variable.
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 32 |
1 files changed, 32 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 3837879626..fbff139c9a 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5422,6 +5422,38 @@ annotation infrastructure.") "This package provides a pipeline for the analysis of GRO-seq data.") (license license:gpl3+))) +(define-public r-txdb-hsapiens-ucsc-hg19-knowngene + (package + (name "r-txdb-hsapiens-ucsc-hg19-knowngene") + (version "3.2.2") + (source (origin + (method url-fetch) + ;; We cannot use bioconductor-uri here because this tarball is + ;; located under "data/annotation/" instead of "bioc/". + (uri (string-append "http://bioconductor.org/packages/" + "release/data/annotation/src/contrib" + "/TxDb.Hsapiens.UCSC.hg19.knownGene_" + version ".tar.gz")) + (sha256 + (base32 + "1sajhcqqwazgz2lqbik7rd935i7kpnh08zxbp2ra10j72yqy4g86")))) + (properties + `((upstream-name . "TxDb.Hsapiens.UCSC.hg19.knownGene"))) + (build-system r-build-system) + ;; As this package provides little more than a very large data file it + ;; doesn't make sense to build substitutes. + (arguments `(#:substitutable? #f)) + (propagated-inputs + `(("r-genomicfeatures" ,r-genomicfeatures))) + (home-page + "http://bioconductor.org/packages/TxDb.Hsapiens.UCSC.hg19.knownGene/") + (synopsis "Annotation package for human genome in TxDb format") + (description + "This package provides an annotation database of Homo sapiens genome +data. It is derived from the UCSC hg19 genome and based on the \"knownGene\" +track. The database is exposed as a @code{TxDb} object.") + (license license:artistic2.0))) + (define-public vsearch (package (name "vsearch") |