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authorRicardo Wurmus <rekado@elephly.net>2019-06-12 11:02:14 +0200
committerRicardo Wurmus <rekado@elephly.net>2019-06-12 11:07:37 +0200
commitae6fa185af4f4fd81d933f229ea370034c26cfdf (patch)
tree3f03b60dbd2ce75fbfc7b759a44bbc24a3c35514 /gnu/packages/bioconductor.scm
parent2444abd9c124cc55f8f19a0462e06a2094f25a9d (diff)
downloadguix-ae6fa185af4f4fd81d933f229ea370034c26cfdf.tar
guix-ae6fa185af4f4fd81d933f229ea370034c26cfdf.tar.gz
gnu: Add r-annotatr.
* gnu/packages/bioconductor.scm (r-annotatr): New variable.
Diffstat (limited to 'gnu/packages/bioconductor.scm')
-rw-r--r--gnu/packages/bioconductor.scm39
1 files changed, 39 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index ff159638b3..c77e78a0f2 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4677,3 +4677,42 @@ Forest, and SVM binary classifiers. The signatures and the corresponding
'restricted' models are returned, enabling future predictions on new
datasets.")
(license license:cecill)))
+
+(define-public r-annotatr
+ (package
+ (name "r-annotatr")
+ (version "1.10.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "annotatr" version))
+ (sha256
+ (base32
+ "1zlhy6swfgqjhhcqn8c6akxd4c4z8p85swfh095imji7hxnlhh1f"))))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-annotationdbi" ,r-annotationdbi)
+ ("r-annotationhub" ,r-annotationhub)
+ ("r-dplyr" ,r-dplyr)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicfeatures" ,r-genomicfeatures)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-iranges" ,r-iranges)
+ ("r-readr" ,r-readr)
+ ("r-regioner" ,r-regioner)
+ ("r-reshape2" ,r-reshape2)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)))
+ (home-page "https://bioconductor.org/packages/annotatr/")
+ (synopsis "Annotation of genomic regions to genomic annotations")
+ (description
+ "Given a set of genomic sites/regions (e.g. ChIP-seq peaks, CpGs,
+differentially methylated CpGs or regions, SNPs, etc.) it is often of interest
+to investigate the intersecting genomic annotations. Such annotations include
+those relating to gene models (promoters, 5'UTRs, exons, introns, and 3'UTRs),
+CpGs (CpG islands, CpG shores, CpG shelves), or regulatory sequences such as
+enhancers. The annotatr package provides an easy way to summarize and
+visualize the intersection of genomic sites/regions with genomic
+annotations.")
+ (license license:gpl3)))