gnu: Add r-sgseq.

* gnu/packages/bioconductor.scm (r-sgseq): New variable.
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Ricardo Wurmus 2019-05-10 13:04:56 +02:00
parent 30f1029f4c
commit 1444153913
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@ -4392,3 +4392,44 @@ Gaussian distributions.")
aligner and around SpliceMap, a de novo splice junction discovery and
alignment tool.")
(license license:artistic2.0)))
(define-public r-sgseq
(package
(name "r-sgseq")
(version "1.18.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "SGSeq" version))
(sha256
(base32
"09c0hv74pl310wahyyp4x50g6sz30bvrg24p2j9h7glla5dh2z4s"))))
(properties `((upstream-name . "SGSeq")))
(build-system r-build-system)
(propagated-inputs
`(("r-annotationdbi" ,r-annotationdbi)
("r-biocgenerics" ,r-biocgenerics)
("r-biostrings" ,r-biostrings)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicfeatures" ,r-genomicfeatures)
("r-genomicranges" ,r-genomicranges)
("r-igraph" ,r-igraph)
("r-iranges" ,r-iranges)
("r-rsamtools" ,r-rsamtools)
("r-rtracklayer" ,r-rtracklayer)
("r-runit" ,r-runit)
("r-s4vectors" ,r-s4vectors)
("r-summarizedexperiment" ,r-summarizedexperiment)))
(home-page "https://bioconductor.org/packages/SGSeq/")
(synopsis "Splice event prediction and quantification from RNA-seq data")
(description
"SGSeq is a package for analyzing splice events from RNA-seq data. Input
data are RNA-seq reads mapped to a reference genome in BAM format. Genes are
represented as a splice graph, which can be obtained from existing annotation
or predicted from the mapped sequence reads. Splice events are identified
from the graph and are quantified locally using structurally compatible reads
at the start or end of each splice variant. The software includes functions
for splice event prediction, quantification, visualization and
interpretation.")
(license license:artistic2.0)))