gnu: Add r-scran.

* gnu/packages/bioinformatics.scm (r-scran): New variable.
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Ricardo Wurmus 2018-02-12 15:29:15 +01:00
parent 658ab21d2e
commit 7f1d9bef50
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@ -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