gnu: Add r-deseq2.

* gnu/packages/bioinformatics.scm (r-deseq2): New variable.
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Ricardo Wurmus 2016-09-21 22:45:24 +02:00 committed by Ricardo Wurmus
parent 2301fd3e4d
commit ad34f0ac96
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@ -5125,6 +5125,51 @@ microarrays.")
high-throughput sequencing experiments.") high-throughput sequencing experiments.")
(license license:artistic2.0))) (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 (define-public vsearch
(package (package
(name "vsearch") (name "vsearch")