aboutsummaryrefslogtreecommitdiff
path: root/gnu
diff options
context:
space:
mode:
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm45
1 files changed, 45 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 1969b72a04..c7728160e6 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3701,6 +3701,51 @@ junction detection, and working with the nucleotide content of the
alignments.")
(license license:artistic2.0)))
+(define-public r-rtracklayer
+ (package
+ (name "r-rtracklayer")
+ (version "1.30.1")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "rtracklayer" version))
+ (sha256
+ (base32
+ "1if31hg56islx5vwydpgs5gkyas26kyvv2ljv1c7jikpm62w14qv"))))
+ (build-system r-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'use-system-zlib
+ (lambda _
+ (substitute* "DESCRIPTION"
+ (("zlibbioc, ") ""))
+ (substitute* "NAMESPACE"
+ (("import\\(zlibbioc\\)") ""))
+ #t)))))
+ (inputs
+ `(("zlib" ,zlib)))
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicalignments" ,r-genomicalignments)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-iranges" ,r-iranges)
+ ("r-rcurl" ,r-rcurl)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-xml" ,r-xml)
+ ("r-xvector" ,r-xvector)))
+ (home-page "http://bioconductor.org/packages/rtracklayer")
+ (synopsis "R interface to genome browsers and their annotation tracks")
+ (description
+ "rtracklayer is an extensible framework for interacting with multiple
+genome browsers (currently UCSC built-in) and manipulating annotation tracks
+in various formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig and 2bit
+built-in). The user may export/import tracks to/from the supported browsers,
+as well as query and modify the browser state, such as the current viewport.")
+ (license license:artistic2.0)))
+
(define-public r-qtl
(package
(name "r-qtl")