From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
To: guix-devel@gnu.org
Subject: [PATCH 23/25] gnu: Add r-systempiper.
Date: Wed, 21 Sep 2016 22:45:39 +0200 [thread overview]
Message-ID: <20160921204541.3981-23-ricardo.wurmus@mdc-berlin.de> (raw)
In-Reply-To: <20160921204541.3981-1-ricardo.wurmus@mdc-berlin.de>
* 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 9915247..f3843dd 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -5343,6 +5343,52 @@ 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")
--
2.9.3
next prev parent reply other threads:[~2016-09-21 20:48 UTC|newest]
Thread overview: 27+ messages / expand[flat|nested] mbox.gz Atom feed top
2016-09-21 20:45 [PATCH 01/25] gnu: Add r-hwriter Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 02/25] gnu: Add r-rjson Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 03/25] gnu: Add r-rpart Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 04/25] gnu: Add r-annotate Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 05/25] gnu: Add r-geneplotter Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 06/25] gnu: Add r-hmisc Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 07/25] gnu: Add r-genefilter Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 08/25] gnu: Add r-deseq2 Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 09/25] gnu: Add r-matrix Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 10/25] gnu: Add r-pheatmap Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 11/25] gnu: Add r-sendmailr Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 12/25] gnu: Add r-backports Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 13/25] gnu: Add r-checkmate Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 14/25] gnu: Add r-bbmisc Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 15/25] gnu: Add r-fail Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 16/25] gnu: Add r-batchjobs Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 17/25] gnu: Add r-annotationforge Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 18/25] gnu: Add r-rbgl Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 19/25] gnu: Add r-gseabase Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 20/25] gnu: Add r-category Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 21/25] gnu: Add r-gostats Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 22/25] gnu: Add r-shortread Ricardo Wurmus
2016-09-21 20:45 ` Ricardo Wurmus [this message]
2016-09-21 20:45 ` [PATCH 24/25] gnu: Add r-grohmm Ricardo Wurmus
2016-09-21 20:45 ` [PATCH 25/25] gnu: Add r-txdb-hsapiens-ucsc-hg19-knowngene Ricardo Wurmus
2016-09-24 7:44 ` [PATCH 01/25] gnu: Add r-hwriter Ludovic Courtès
2016-09-26 1:09 ` Ricardo Wurmus
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