From 187f678cdc529b7c6d1cf11931866394a427dfd3 Mon Sep 17 00:00:00 2001 From: Raoul Jean Pierre Bonnal Date: Tue, 27 Dec 2016 22:18:32 +0100 Subject: [PATCH 11/11] gnu: Add r-scran. --- gnu/packages/bioinformatics.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 678fae7..5e06664 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7722,6 +7722,35 @@ available RAM.") 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 "1.2.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "scran" version)) + (sha256 + (base32 + "1wnsmp46x9zgbiacf9hxhpy42gxbvwf8q2x6dchc3r9g4p2s65c5")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-biocgenerics" ,r-biocgenerics) + ("r-biocparallel" ,r-biocparallel) + ("r-dynamictreecut" ,r-dynamictreecut) + ("r-edger" ,r-edger) + ("r-scater" ,r-scater) + ("r-shiny" ,r-shiny) + ("r-statmod" ,r-statmod) + ("r-zoo" ,r-zoo))) + (home-page "http://bioconductor.org/packages/scran") + (synopsis "Methods for single-cell RNA-Seq data analysis") + (description + "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-public emboss (package -- 1.9.1