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authorRicardo Wurmus <rekado@elephly.net>2019-09-15 22:50:31 +0200
committerRicardo Wurmus <rekado@elephly.net>2019-09-15 22:50:31 +0200
commit4c63eeb8a45762b9135d8ed192ce61a4469d1348 (patch)
tree75002e9ba299c3c22bb9d705a3b3c53a7cd33368 /gnu/packages/bioconductor.scm
parentd6a5d9b24f30d35b41f76053be2b826b8d63815d (diff)
downloadpatches-4c63eeb8a45762b9135d8ed192ce61a4469d1348.tar
patches-4c63eeb8a45762b9135d8ed192ce61a4469d1348.tar.gz
gnu: Add r-oligo.
* gnu/packages/bioconductor.scm (r-oligo): New variable.
Diffstat (limited to 'gnu/packages/bioconductor.scm')
-rw-r--r--gnu/packages/bioconductor.scm34
1 files changed, 34 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b60c5d8ef2..9cb4ca36e8 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1326,6 +1326,40 @@ initialization methods for classes used by the @code{oligo} and @code{crlmm}
packages.")
(license license:gpl2+)))
+(define-public r-oligo
+ (package
+ (name "r-oligo")
+ (version "1.48.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "oligo" version))
+ (sha256
+ (base32
+ "0qkyz65zvry0syibjkvkshwijccna18jy0hlib0n5x4c8x9zs5df"))))
+ (properties `((upstream-name . "oligo")))
+ (build-system r-build-system)
+ (inputs `(("zlib" ,zlib)))
+ (propagated-inputs
+ `(("r-affxparser" ,r-affxparser)
+ ("r-affyio" ,r-affyio)
+ ("r-biobase" ,r-biobase)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-dbi" ,r-dbi)
+ ("r-ff" ,r-ff)
+ ("r-oligoclasses" ,r-oligoclasses)
+ ("r-preprocesscore" ,r-preprocesscore)
+ ("r-rsqlite" ,r-rsqlite)
+ ("r-zlibbioc" ,r-zlibbioc)))
+ (home-page "https://bioconductor.org/packages/oligo/")
+ (synopsis "Preprocessing tools for oligonucleotide arrays")
+ (description
+ "This package provides a package to analyze oligonucleotide
+arrays (expression/SNP/tiling/exon) at probe-level. It currently supports
+Affymetrix (CEL files) and NimbleGen arrays (XYS files).")
+ (license license:lgpl2.0+)))
+
(define-public r-qvalue
(package
(name "r-qvalue")