@@ 5125,6 5125,51 @@ microarrays.")
high-throughput sequencing experiments.")
(license license:artistic2.0)))
+(define-public r-deseq2
+ (package
+ (name "r-deseq2")
+ (version "1.12.4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "DESeq2" version))
+ (sha256
+ (base32
+ "12h77f0dpi5xaj7aqf50kkyn6lq9j7bcsly1r0ffmyfcszrp1sfx"))))
+ (properties `((upstream-name . "DESeq2")))
+ (build-system r-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'link-against-armadillo
+ (lambda _
+ (substitute* "src/Makevars"
+ (("PKG_LIBS =" prefix)
+ (string-append prefix "-larmadillo"))))))))
+ (propagated-inputs
+ `(("r-biobase" ,r-biobase)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-genefilter" ,r-genefilter)
+ ("r-geneplotter" ,r-geneplotter)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-hmisc" ,r-hmisc)
+ ("r-iranges" ,r-iranges)
+ ("r-locfit" ,r-locfit)
+ ("r-rcpp" ,r-rcpp)
+ ("r-rcpparmadillo" ,r-rcpparmadillo)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)))
+ (home-page "http://bioconductor.org/packages/DESeq2")
+ (synopsis "Differential gene expression analysis")
+ (description
+ "This package provides functions to estimate variance-mean dependence in
+count data from high-throughput nucleotide sequencing assays and test for
+differential expression based on a model using the negative binomial
+distribution.")
+ (license license:lgpl3+)))
+
(define-public vsearch
(package
(name "vsearch")