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authorRicardo Wurmus <rekado@elephly.net>2019-05-10 13:16:09 +0200
committerRicardo Wurmus <rekado@elephly.net>2019-05-10 13:31:03 +0200
commit5e0241db84afdabaa455634924a48528ed8ebbe3 (patch)
treeae95e39814914912241cb4a6016a4041fb16e96d /gnu
parent5865606459d018758be55f31f8fa4b1f849fa74e (diff)
gnu: Add r-quasr.
* gnu/packages/bioconductor.scm (r-quasr): New variable.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioconductor.scm45
1 files changed, 45 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index e534b33555..62fd1132da 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4462,3 +4462,48 @@ aligner by Kim et al. (2015). The package contains wrapper functions to
create a genome index and to perform the read alignment to the generated
index.")
(license license:gpl3)))
+
+(define-public r-quasr
+ (package
+ (name "r-quasr")
+ (version "1.24.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "QuasR" version))
+ (sha256
+ (base32
+ "02mdg3mq99gsqq181j3sfh9pid5l7dqjl68rk4fpc1rvm128y743"))))
+ (properties `((upstream-name . "QuasR")))
+ (build-system r-build-system)
+ (inputs
+ `(("zlib" ,zlib)))
+ (propagated-inputs
+ `(("r-annotationdbi" ,r-annotationdbi)
+ ("r-biobase" ,r-biobase)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocmanager" ,r-biocmanager)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-biostrings" ,r-biostrings)
+ ("r-bsgenome" ,r-bsgenome)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicalignments" ,r-genomicalignments)
+ ("r-genomicfeatures" ,r-genomicfeatures)
+ ("r-genomicfiles" ,r-genomicfiles)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-iranges" ,r-iranges)
+ ("r-rbowtie" ,r-rbowtie)
+ ("r-rhisat2" ,r-rhisat2)
+ ("r-rhtslib" ,r-rhtslib)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-shortread" ,r-shortread)))
+ (home-page "https://bioconductor.org/packages/QuasR/")
+ (synopsis "Quantify and annotate short reads in R")
+ (description
+ "This package provides a framework for the quantification and analysis of
+short genomic reads. It covers a complete workflow starting from raw sequence
+reads, over creation of alignments and quality control plots, to the
+quantification of genomic regions of interest.")
+ (license license:gpl2)))