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authorRicardo Wurmus <rekado@elephly.net>2019-03-29 20:28:38 +0100
committerRicardo Wurmus <rekado@elephly.net>2019-03-30 08:55:45 +0100
commit28098414d0e1455110b9ee8a500255f93dc34e20 (patch)
tree2778a6d8297cf94921c7093fa177f237cb1c6ce2
parent398c4a93471067698efc965d4de03d66b2b9738e (diff)
downloadpatches-28098414d0e1455110b9ee8a500255f93dc34e20.tar
patches-28098414d0e1455110b9ee8a500255f93dc34e20.tar.gz
gnu: Add r-somaticsignatures.
* gnu/packages/bioconductor.scm (r-somaticsignatures): New variable.
-rw-r--r--gnu/packages/bioconductor.scm37
1 files changed, 37 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index d3ffd41a3c..78fd5a989b 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -3685,3 +3685,40 @@ dimensional data which are represented as tracks describe different features
from different aspects. This package provides high flexibility to arrange
genomic categories and to add self-defined graphics in the plot.")
(license license:expat)))
+
+(define-public r-somaticsignatures
+ (package
+ (name "r-somaticsignatures")
+ (version "2.18.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "SomaticSignatures" version))
+ (sha256
+ (base32
+ "013dslbyq55a41d3n842brjk2bq1kxw0r18mb6drgbxx2sflzc02"))))
+ (properties
+ `((upstream-name . "SomaticSignatures")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biobase" ,r-biobase)
+ ("r-biostrings" ,r-biostrings)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggbio" ,r-ggbio)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-iranges" ,r-iranges)
+ ("r-nmf" ,r-nmf)
+ ("r-pcamethods" ,r-pcamethods)
+ ("r-proxy" ,r-proxy)
+ ("r-reshape2" ,r-reshape2)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-variantannotation" ,r-variantannotation)))
+ (home-page "https://github.com/juliangehring/SomaticSignatures")
+ (synopsis "Somatic signatures")
+ (description
+ "This package identifies mutational signatures of @dfn{single nucleotide
+variants} (SNVs). It provides a infrastructure related to the methodology
+described in Nik-Zainal (2012, Cell), with flexibility in the matrix
+decomposition algorithms.")
+ (license license:expat)))