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17/36: gnu: Add GenomicAlignments.
From: |
Ricardo Wurmus |
Subject: |
17/36: gnu: Add GenomicAlignments. |
Date: |
Thu, 07 Jan 2016 16:19:09 +0000 |
rekado pushed a commit to branch master
in repository guix.
commit d8a828af78ce92c583bedb23e379b5b4dd332ab1
Author: Ricardo Wurmus <address@hidden>
Date: Fri Dec 18 14:08:36 2015 +0100
gnu: Add GenomicAlignments.
* gnu/packages/bioinformatics.scm (r-genomicalignments): New variable.
---
gnu/packages/bioinformatics.scm | 33 +++++++++++++++++++++++++++++++++
1 files changed, 33 insertions(+), 0 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 4da9954..1969b72 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3668,6 +3668,39 @@ typically represent genomic ranges of interest and the
columns represent
samples.")
(license license:artistic2.0)))
+(define-public r-genomicalignments
+ (package
+ (name "r-genomicalignments")
+ (version "1.6.1")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "GenomicAlignments" version))
+ (sha256
+ (base32
+ "03pxzkmwcpl0d7a09ahan0nllfv7qw2i7w361w6af2s4n3xwrniz"))))
+ (properties
+ `((upstream-name . "GenomicAlignments")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-biostrings" ,r-biostrings)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-iranges" ,r-iranges)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)))
+ (home-page "http://bioconductor.org/packages/GenomicAlignments")
+ (synopsis "Representation and manipulation of short genomic alignments")
+ (description
+ "This package provides efficient containers for storing and manipulating
+short genomic alignments (typically obtained by aligning short reads to a
+reference genome). This includes read counting, computing the coverage,
+junction detection, and working with the nucleotide content of the
+alignments.")
+ (license license:artistic2.0)))
+
(define-public r-qtl
(package
(name "r-qtl")
- 07/36: gnu: Add futile.options., (continued)
- 07/36: gnu: Add futile.options., Ricardo Wurmus, 2016/01/07
- 04/36: gnu: Add RCurl., Ricardo Wurmus, 2016/01/07
- 13/36: gnu: Add BiocParallel., Ricardo Wurmus, 2016/01/07
- 15/36: gnu: Add Rsamtools., Ricardo Wurmus, 2016/01/07
- 18/36: gnu: Add rtracklayer., Ricardo Wurmus, 2016/01/07
- 09/36: gnu: Add snow., Ricardo Wurmus, 2016/01/07
- 08/36: gnu: Add futile.logger., Ricardo Wurmus, 2016/01/07
- 14/36: gnu: Add Biostrings., Ricardo Wurmus, 2016/01/07
- 03/36: gnu: Add RSQLite., Ricardo Wurmus, 2016/01/07
- 21/36: gnu: Add SparseM., Ricardo Wurmus, 2016/01/07
- 17/36: gnu: Add GenomicAlignments.,
Ricardo Wurmus <=
- 12/36: gnu: Add biomaRt., Ricardo Wurmus, 2016/01/07
- 11/36: gnu: Add AnnotationDbi., Ricardo Wurmus, 2016/01/07
- 06/36: gnu: Add lambda.r., Ricardo Wurmus, 2016/01/07
- 20/36: gnu: Add GO.db., Ricardo Wurmus, 2016/01/07
- 16/36: gnu: Add SummarizedExperiment., Ricardo Wurmus, 2016/01/07
- 27/36: gnu: Add R.cache., Ricardo Wurmus, 2016/01/07
- 28/36: gnu: Add R.rsp., Ricardo Wurmus, 2016/01/07
- 23/36: gnu: Add base64enc., Ricardo Wurmus, 2016/01/07
- 26/36: gnu: Add R.utils., Ricardo Wurmus, 2016/01/07
- 05/36: gnu: Add r-xml., Ricardo Wurmus, 2016/01/07