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06/07: gnu: Add r-riboprofiling.
From: |
Ricardo Wurmus |
Subject: |
06/07: gnu: Add r-riboprofiling. |
Date: |
Fri, 15 Jun 2018 01:43:31 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 0490f9de88edef1947c6e047701a86bf1b37a506
Author: Ricardo Wurmus <address@hidden>
Date: Fri Jun 15 07:38:17 2018 +0200
gnu: Add r-riboprofiling.
* gnu/packages/bioconductor.scm (r-riboprofiling): New variable.
---
gnu/packages/bioconductor.scm | 39 +++++++++++++++++++++++++++++++++++++++
1 file changed, 39 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 93d68c2..8dbbb74 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -536,3 +536,42 @@ sites across multiple conditions considering matching
control in ChIP-seq
datasets.")
;; Any version of the GPL.
(license license:gpl3+)))
+
+(define-public r-riboprofiling
+ (package
+ (name "r-riboprofiling")
+ (version "1.10.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "RiboProfiling" version))
+ (sha256
+ (base32
+ "04yjklqdjkim7yxyk3cyvf0mmwyxyfvw2mmfzgwaaqbiyg29sli0"))))
+ (properties `((upstream-name . "RiboProfiling")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-data-table" ,r-data-table)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicalignments" ,r-genomicalignments)
+ ("r-genomicfeatures" ,r-genomicfeatures)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggbio" ,r-ggbio)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-iranges" ,r-iranges)
+ ("r-plyr" ,r-plyr)
+ ("r-reshape2" ,r-reshape2)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-sqldf" ,r-sqldf)))
+ (home-page "https://bioconductor.org/packages/RiboProfiling/")
+ (synopsis "Ribosome profiling data analysis")
+ (description "Starting with a BAM file, this package provides the
+necessary functions for quality assessment, read start position recalibration,
+the counting of genomic sequence reads on CDS, 3'UTR, and 5'UTR, and plotting
+of count data: pairs, log fold-change, codon frequency and coverage
+assessment, principal component analysis on codon coverage.")
+ (license license:gpl3)))
- branch master updated (b494bbe -> 6ffdfe6), Ricardo Wurmus, 2018/06/15
- 01/07: gnu: Add r-bayseq., Ricardo Wurmus, 2018/06/15
- 04/07: gnu: Add r-bsgenome-mmusculus-ucsc-mm9-masked., Ricardo Wurmus, 2018/06/15
- 06/07: gnu: Add r-riboprofiling.,
Ricardo Wurmus <=
- 07/07: gnu: Add r-riboseqr., Ricardo Wurmus, 2018/06/15
- 05/07: gnu: Add r-chipcomp., Ricardo Wurmus, 2018/06/15
- 03/07: gnu: Add r-bsgenome-hsapiens-ucsc-hg19-masked., Ricardo Wurmus, 2018/06/15
- 02/07: gnu: Add r-bsgenome-dmelanogaster-ucsc-dm3-masked., Ricardo Wurmus, 2018/06/15