gnu: r-gkmsvm: Move to (gnu packages bioconductor).

* gnu/packages/bioinformatics.scm (r-gkmsvm): Move from here...
* gnu/packages/bioconductor.scm (r-gkmsvm): ...to here.
master
Ricardo Wurmus 2019-03-25 14:34:41 +01:00
parent bac0ca322c
commit 80eb01c776
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2 changed files with 34 additions and 33 deletions

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@ -2521,3 +2521,37 @@ summaries of the read-types produced, it provides a number of plots for
visualising metrics relative to experiment run time or spatially over the
surface of a flowcell.")
(license license:expat)))
;; This is a CRAN package, but it depends on packages from Bioconductor.
(define-public r-gkmsvm
(package
(name "r-gkmsvm")
(version "0.79.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "gkmSVM" version))
(sha256
(base32
"04dakbgfvfalz4rm4fvvybp506dn5fbj5g86ybfhrc6wywjllsz3"))))
(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 "https://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+)))

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@ -8533,39 +8533,6 @@ 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 "0.79.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "gkmSVM" version))
(sha256
(base32
"04dakbgfvfalz4rm4fvvybp506dn5fbj5g86ybfhrc6wywjllsz3"))))
(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 "https://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 r-tximport
(package
(name "r-tximport")