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| author | Ricardo Wurmus <rekado@elephly.net> | 2018-02-12 15:29:15 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2018-02-12 15:29:44 +0100 |
| commit | 7f1d9bef503e546eb3572e7930793dcbe0d2407e (patch) | |
| tree | ab1c4f316ef1e4c582ab2430adb61db1370d8a66 | |
| parent | 658ab21d2e16bda0a8c3cfc8f4cc4715628b6247 (diff) | |
| download | guix-7f1d9bef503e546eb3572e7930793dcbe0d2407e.tar guix-7f1d9bef503e546eb3572e7930793dcbe0d2407e.tar.gz | |
gnu: Add r-scran.
* gnu/packages/bioinformatics.scm (r-scran): New variable.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 42 |
1 files changed, 42 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 16bb1c0f8d..ea92e93703 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 |