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authorRicardo Wurmus <rekado@elephly.net>2016-11-24 15:42:22 +0100
committerRicardo Wurmus <rekado@elephly.net>2016-11-28 22:43:18 +0100
commitbd3be46e7fd148eef4b4ba81ee5cd4d159e9c20c (patch)
tree9bfb8ac93effb90c92cb86adaceb7ad0c109abdc /gnu/packages/bioinformatics.scm
parent419a8a186f87308e6092067ad01b4f80199dd629 (diff)
downloadguix-bd3be46e7fd148eef4b4ba81ee5cd4d159e9c20c.tar
guix-bd3be46e7fd148eef4b4ba81ee5cd4d159e9c20c.tar.gz
gnu: Add r-gkmsvm.
* gnu/packages/bioinformatics.scm (r-gkmsvm): New variable.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r--gnu/packages/bioinformatics.scm33
1 files changed, 33 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 5f63707bf8..4b848535dc 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7643,6 +7643,39 @@ bound and non bound genomic regions to accurately identify transcription
factors bound at the specific regions.")
(license license:gpl2+)))
+(define-public r-gkmsvm
+ (package
+ (name "r-gkmsvm")
+ (version "0.71.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "gkmSVM" version))
+ (sha256
+ (base32
+ "1zpxgxmf2nd5j5wn00ps6kfxr8wxh7d1swr1rr4spq7sj5z5z0k0"))))
+ (properties `((upstream-name . "gkmSVM")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-iranges" ,r-iranges)
+ ("r-kernlab" ,r-kernlab)
+ ("r-rcpp" ,r-rcpp)
+ ("r-rocr" ,r-rocr)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-seqinr" ,r-seqinr)))
+ (home-page "http://cran.r-project.org/web/packages/gkmSVM")
+ (synopsis "Gapped-kmer support vector machine")
+ (description
+ "This R package provides tools for training gapped-kmer SVM classifiers
+for DNA and protein sequences. This package supports several sequence
+kernels, including: gkmSVM, kmer-SVM, mismatch kernel and wildcard kernel.")
+ (license license:gpl2+)))
+
(define-public emboss
(package
(name "emboss")