gnu: Add r-chippeakanno.

* gnu/packages/bioconductor.scm (r-chippeakanno): New variable.
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Roel Janssen 2018-04-24 13:58:01 +02:00
parent a6ae9ffd6a
commit 793f83efe1
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@ -185,3 +185,53 @@ reported in terms of adjusted P-values, confidence regions and test statistic
cutoffs. The procedures are directly applicable to identifying differentially
expressed genes in DNA microarray experiments.")
(license license:lgpl3)))
(define-public r-chippeakanno
(package
(name "r-chippeakanno")
(version "3.12.7")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "ChIPpeakAnno" version))
(sha256
(base32
"1zab489d7a6bh6ylc68x6yn47gdkmr7p3677grx9l2qafrryjr04"))))
(properties `((upstream-name . "ChIPpeakAnno")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-go-db" ,r-go-db)
("r-biomart" ,r-biomart)
("r-bsgenome" ,r-bsgenome)
("r-genomicfeatures" ,r-genomicfeatures)
("r-genomeinfodb" ,r-genomeinfodb)
("r-matrixstats" ,r-matrixstats)
("r-annotationdbi" ,r-annotationdbi)
("r-limma" ,r-limma)
("r-multtest" ,r-multtest)
("r-rbgl" ,r-rbgl)
("r-graph" ,r-graph)
("r-biocinstaller" ,r-biocinstaller)
("r-regioner" ,r-regioner)
("r-dbi" ,r-dbi)
("r-ensembldb" ,r-ensembldb)
("r-biobase" ,r-biobase)
("r-seqinr" ,r-seqinr)
("r-idr" ,r-idr)
("r-genomicalignments" ,r-genomicalignments)
("r-summarizedexperiment" ,r-summarizedexperiment)
("r-rsamtools" ,r-rsamtools)
("r-venndiagram" ,r-venndiagram)))
(home-page "http://bioconductor.org/packages/ChIPpeakAnno")
(synopsis "Peaks annotation from ChIP-seq and ChIP-chip experiments")
(description
"The package includes functions to retrieve the sequences around the peak,
obtain enriched Gene Ontology (GO) terms, find the nearest gene, exon, miRNA or
custom features such as most conserved elements and other transcription factor
binding sites supplied by users. Starting 2.0.5, new functions have been added
for finding the peaks with bi-directional promoters with summary statistics
(peaksNearBDP), for summarizing the occurrence of motifs in peaks
(summarizePatternInPeaks) and for adding other IDs to annotated peaks or
enrichedGO (addGeneIDs).")
(license license:gpl2+)))