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authorRicardo Wurmus <rekado@elephly.net>2019-03-29 20:28:46 +0100
committerRicardo Wurmus <rekado@elephly.net>2019-03-30 08:55:45 +0100
commit303f2ed1c6447bd01e5310ea16aec6cbd0153a5b (patch)
tree3612e4233f4c053e19892be6238bd91264cc9631 /gnu
parent28098414d0e1455110b9ee8a500255f93dc34e20 (diff)
gnu: Add r-yapsa.
* gnu/packages/bioconductor.scm (r-yapsa): New variable.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioconductor.scm40
1 files changed, 40 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 78fd5a989b..4c31ffcc0d 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -3722,3 +3722,43 @@ 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)))
+
+(define-public r-yapsa
+ (package
+ (name "r-yapsa")
+ (version "1.8.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "YAPSA" version))
+ (sha256
+ (base32
+ "1agacimdd1m5yja2xbcsb83mns4svpxbjcsfrvm9ydqdj737i10j"))))
+ (properties `((upstream-name . "YAPSA")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-circlize" ,r-circlize)
+ ("r-complexheatmap" ,r-complexheatmap)
+ ("r-corrplot" ,r-corrplot)
+ ("r-dendextend" ,r-dendextend)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-getoptlong" ,r-getoptlong)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-gridextra" ,r-gridextra)
+ ("r-gtrellis" ,r-gtrellis)
+ ("r-keggrest" ,r-keggrest)
+ ("r-lsei" ,r-lsei)
+ ("r-pmcmr" ,r-pmcmr)
+ ("r-reshape2" ,r-reshape2)
+ ("r-somaticsignatures" ,r-somaticsignatures)
+ ("r-variantannotation" ,r-variantannotation)))
+ (home-page "https://bioconductor.org/packages/YAPSA/")
+ (synopsis "Yet another package for signature analysis")
+ (description
+ "This package provides functions and routines useful in the analysis of
+somatic signatures (cf. L. Alexandrov et al., Nature 2013). In particular,
+functions to perform a signature analysis with known signatures and a
+signature analysis on @dfn{stratified mutational catalogue} (SMC) are
+provided.")
+ (license license:gpl3)))