rekado pushed a commit to branch master
in repository guix.
commit 7f1d9bef503e546eb3572e7930793dcbe0d2407e
Author: Ricardo Wurmus <rek...@elephly.net>
Date: Mon Feb 12 15:29:15 2018 +0100
gnu: Add r-scran.
* gnu/packages/bioinformatics.scm (r-scran): New variable.
---
gnu/packages/bioinformatics.scm | 42 +++++++++++++++++++++++++++++++++++++++++
1 file changed, 42 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 16bb1c0..ea92e93 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -10582,6 +10582,48 @@ various analyses of single-cell RNA-seq gene
expression data, with a focus on
quality control.")
(license license:gpl2+)))
+(define-public r-scran
+ (package
+ (name "r-scran")
+ (version "1.6.7")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "scran" version))
+ (sha256
+ (base32
+ "0zfm5i8xrnzb3894xygqd6zkbwaa2x3z74wbxw39fcjhyhxv2hmb"))))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-beachmat" ,r-beachmat)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-dt" ,r-dt)
+ ("r-dynamictreecut" ,r-dynamictreecut)
+ ("r-edger" ,r-edger)
+ ("r-fnn" ,r-fnn)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-igraph" ,r-igraph)
+ ("r-limma" ,r-limma)
+ ("r-matrix" ,r-matrix)
+ ("r-rcpp" ,r-rcpp)
+ ("r-rhdf5lib" ,r-rhdf5lib)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-scater" ,r-scater)
+ ("r-shiny" ,r-shiny)
+ ("r-singlecellexperiment" ,r-singlecellexperiment)
+ ("r-statmod" ,r-statmod)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)
+ ("r-viridis" ,r-viridis)
+ ("r-zoo" ,r-zoo)))
+ (home-page "https://bioconductor.org/packages/scran";)
+ (synopsis "Methods for single-cell RNA-Seq data analysis")
+ (description "This package implements a variety of low-level analyses of
+single-cell RNA-seq data. Methods are provided for normalization of
+cell-specific biases, assignment of cell cycle phase, and detection of highly
+variable and significantly correlated genes.")
+ (license license:gpl3)))
+
(define htslib-for-sambamba
(let ((commit "2f3c3ea7b301f9b45737a793c0b2dcf0240e5ee5"))
(package
