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| author | Ricardo Wurmus <rekado@elephly.net> | 2019-03-06 15:55:54 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2019-03-06 15:55:54 +0100 |
| commit | cb66fb101f392a59dab6f81048abe9356c30361a (patch) | |
| tree | 6ecdd3b0cb7ba5bcfda4bcc7c58ec52ed1532276 | |
| parent | afeb10a056e1f5f2c492ace9ee0a33f09cb53e8a (diff) | |
gnu: Add r-scde.
* gnu/packages/bioinformatics.scm (r-scde): 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 4b775d8b7d..196c563625 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -6280,6 +6280,48 @@ sequence.") (supported-systems '("i686-linux" "x86_64-linux")) (license license:bsd-3))) +(define-public r-scde + (package + (name "r-scde") + (version "1.99.2") + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/hms-dbmi/scde.git") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "10na2gyka24mszdxf92wz9h2c13hdf1ww30c68gfsw53lvvhhhxb")))) + (build-system r-build-system) + (propagated-inputs + `(("r-rcpp" ,r-rcpp) + ("r-rcpparmadillo" ,r-rcpparmadillo) + ("r-mgcv" ,r-mgcv) + ("r-rook" ,r-rook) + ("r-rjson" ,r-rjson) + ("r-cairo" ,r-cairo) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-edger" ,r-edger) + ("r-quantreg" ,r-quantreg) + ("r-nnet" ,r-nnet) + ("r-rmtstat" ,r-rmtstat) + ("r-extremes" ,r-extremes) + ("r-pcamethods" ,r-pcamethods) + ("r-biocparallel" ,r-biocparallel) + ("r-flexmix" ,r-flexmix))) + (home-page "https://hms-dbmi.github.io/scde/") + (synopsis "R package for analyzing single-cell RNA-seq data") + (description "The SCDE package implements a set of statistical methods for +analyzing single-cell RNA-seq data. SCDE fits individual error models for +single-cell RNA-seq measurements. These models can then be used for +assessment of differential expression between groups of cells, as well as +other types of analysis. The SCDE package also contains the pagoda framework +which applies pathway and gene set overdispersion analysis to identify aspects +of transcriptional heterogeneity among single cells.") + ;; See https://github.com/hms-dbmi/scde/issues/38 + (license license:gpl2))) + (define-public r-centipede (package (name "r-centipede") |