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authorRicardo Wurmus <rekado@elephly.net>2017-05-17 16:36:57 +0200
committerRicardo Wurmus <rekado@elephly.net>2017-05-22 18:54:59 +0200
commit7b46532779ddc6b01f99989be0eda91149809ce4 (patch)
tree809136b9ba223d55ae0c71ca474c400ac8b0e85d
parentd4b83651d1331ebe5327d0d448567f3084bdd8b5 (diff)
downloadpatches-7b46532779ddc6b01f99989be0eda91149809ce4.tar
patches-7b46532779ddc6b01f99989be0eda91149809ce4.tar.gz
gnu: Add r-deseq.
* gnu/packages/bioinformatics.scm (r-deseq): New variable.
-rw-r--r--gnu/packages/bioinformatics.scm31
1 files changed, 31 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index a372b163cf..55c076ca1b 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9021,6 +9021,37 @@ standalone, be utilized in other packages, or be wrapped up in higher-level
classes.")
(license license:gpl2+)))
+(define-public r-deseq
+ (package
+ (name "r-deseq")
+ (version "1.28.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "DESeq" version))
+ (sha256
+ (base32
+ "0j3dgcxd64m9qknmlcbdzvg4xhp981xd6nbwsvnqjfn6yypslgyw"))))
+ (properties `((upstream-name . "DESeq")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biobase" ,r-biobase)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-genefilter" ,r-genefilter)
+ ("r-geneplotter" ,r-geneplotter)
+ ("r-lattice" ,r-lattice)
+ ("r-locfit" ,r-locfit)
+ ("r-mass" ,r-mass)
+ ("r-rcolorbrewer" ,r-rcolorbrewer)))
+ (home-page "http://www-huber.embl.de/users/anders/DESeq")
+ (synopsis "Differential gene expression analysis")
+ (description
+ "This package provides tools for estimating variance-mean dependence in
+count data from high-throughput genetic sequencing assays and for testing for
+differential expression based on a model using the negative binomial
+distribution.")
+ (license license:gpl3+)))
+
(define htslib-for-sambamba
(let ((commit "2f3c3ea7b301f9b45737a793c0b2dcf0240e5ee5"))
(package