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23/25: gnu: Add r-systempiper.
From: |
Ricardo Wurmus |
Subject: |
23/25: gnu: Add r-systempiper. |
Date: |
Mon, 26 Sep 2016 05:48:18 +0000 (UTC) |
rekado pushed a commit to branch master
in repository guix.
commit 7f903d7300059a34f2bbb11dc2c07ee1d0b59c0b
Author: Ricardo Wurmus <address@hidden>
Date: Wed Sep 21 22:45:39 2016 +0200
gnu: Add r-systempiper.
* gnu/packages/bioinformatics.scm (r-systempiper): New variable.
---
gnu/packages/bioinformatics.scm | 46 +++++++++++++++++++++++++++++++++++++++
1 file changed, 46 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 4dcf661..fdd7113 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -5350,6 +5350,52 @@ purposes. The package also contains legacy support for
early single-end,
ungapped alignment formats.")
(license license:artistic2.0)))
+(define-public r-systempiper
+ (package
+ (name "r-systempiper")
+ (version "1.6.4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "systemPipeR" version))
+ (sha256
+ (base32
+ "0s2g46a5d5bvx45i3cgmib48wf8hrniyladhm0f7kgcbfx57248m"))))
+ (properties `((upstream-name . "systemPipeR")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-annotate" ,r-annotate)
+ ("r-batchjobs" ,r-batchjobs)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-deseq2" ,r-deseq2)
+ ("r-edger" ,r-edger)
+ ("r-genomicfeatures" ,r-genomicfeatures)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-go-db" ,r-go-db)
+ ("r-gostats" ,r-gostats)
+ ("r-limma" ,r-limma)
+ ("r-pheatmap" ,r-pheatmap)
+ ("r-rjson" ,r-rjson)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-shortread" ,r-shortread)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)
+ ("r-variantannotation" ,r-variantannotation)))
+ (home-page "https://github.com/tgirke/systemPipeR")
+ (synopsis "Next generation sequencing workflow and reporting environment")
+ (description
+ "This R package provides tools for building and running automated
+end-to-end analysis workflows for a wide range of @dfn{next generation
+sequence} (NGS) applications such as RNA-Seq, ChIP-Seq, VAR-Seq and Ribo-Seq.
+Important features include a uniform workflow interface across different NGS
+applications, automated report generation, and support for running both R and
+command-line software, such as NGS aligners or peak/variant callers, on local
+computers or compute clusters. Efficient handling of complex sample sets and
+experimental designs is facilitated by a consistently implemented sample
+annotation infrastructure.")
+ (license license:artistic2.0)))
+
(define-public vsearch
(package
(name "vsearch")
- 08/25: gnu: Add r-deseq2., (continued)
- 08/25: gnu: Add r-deseq2., Ricardo Wurmus, 2016/09/26
- 01/25: gnu: Add r-hwriter., Ricardo Wurmus, 2016/09/26
- 04/25: gnu: Add r-annotate., Ricardo Wurmus, 2016/09/26
- 09/25: gnu: Add r-matrix., Ricardo Wurmus, 2016/09/26
- 10/25: gnu: Add r-pheatmap., Ricardo Wurmus, 2016/09/26
- 11/25: gnu: Add r-sendmailr., Ricardo Wurmus, 2016/09/26
- 18/25: gnu: Add r-rbgl., Ricardo Wurmus, 2016/09/26
- 15/25: gnu: Add r-fail., Ricardo Wurmus, 2016/09/26
- 06/25: gnu: Add r-hmisc., Ricardo Wurmus, 2016/09/26
- 07/25: gnu: Add r-genefilter., Ricardo Wurmus, 2016/09/26
- 23/25: gnu: Add r-systempiper.,
Ricardo Wurmus <=
- 05/25: gnu: Add r-geneplotter., Ricardo Wurmus, 2016/09/26
- 12/25: gnu: Add r-backports., Ricardo Wurmus, 2016/09/26
- 21/25: gnu: Add r-gostats., Ricardo Wurmus, 2016/09/26
- 17/25: gnu: Add r-annotationforge., Ricardo Wurmus, 2016/09/26
- 16/25: gnu: Add r-batchjobs., Ricardo Wurmus, 2016/09/26
- 24/25: gnu: Add r-grohmm., Ricardo Wurmus, 2016/09/26
- 22/25: gnu: Add r-shortread., Ricardo Wurmus, 2016/09/26
- 25/25: gnu: Add r-txdb-hsapiens-ucsc-hg19-knowngene., Ricardo Wurmus, 2016/09/26
- 03/25: gnu: Add r-rpart., Ricardo Wurmus, 2016/09/26
- 14/25: gnu: Add r-bbmisc., Ricardo Wurmus, 2016/09/26