gnu: Add r-scran.
* gnu/packages/bioinformatics.scm (r-scran): New variable.
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@ -10582,6 +10582,48 @@ various analyses of single-cell RNA-seq gene expression data, with a focus on
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quality control.")
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quality control.")
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(license license:gpl2+)))
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(license license:gpl2+)))
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(define-public r-scran
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(package
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(name "r-scran")
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(version "1.6.7")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "scran" version))
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(sha256
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(base32
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"0zfm5i8xrnzb3894xygqd6zkbwaa2x3z74wbxw39fcjhyhxv2hmb"))))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-beachmat" ,r-beachmat)
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("r-biocgenerics" ,r-biocgenerics)
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("r-biocparallel" ,r-biocparallel)
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("r-dt" ,r-dt)
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("r-dynamictreecut" ,r-dynamictreecut)
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("r-edger" ,r-edger)
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("r-fnn" ,r-fnn)
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("r-ggplot2" ,r-ggplot2)
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("r-igraph" ,r-igraph)
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("r-limma" ,r-limma)
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("r-matrix" ,r-matrix)
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("r-rcpp" ,r-rcpp)
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("r-rhdf5lib" ,r-rhdf5lib)
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("r-s4vectors" ,r-s4vectors)
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("r-scater" ,r-scater)
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("r-shiny" ,r-shiny)
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("r-singlecellexperiment" ,r-singlecellexperiment)
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("r-statmod" ,r-statmod)
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("r-summarizedexperiment" ,r-summarizedexperiment)
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("r-viridis" ,r-viridis)
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("r-zoo" ,r-zoo)))
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(home-page "https://bioconductor.org/packages/scran")
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(synopsis "Methods for single-cell RNA-Seq data analysis")
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(description "This package implements a variety of low-level analyses of
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single-cell RNA-seq data. Methods are provided for normalization of
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cell-specific biases, assignment of cell cycle phase, and detection of highly
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variable and significantly correlated genes.")
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(license license:gpl3)))
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(define htslib-for-sambamba
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(define htslib-for-sambamba
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(let ((commit "2f3c3ea7b301f9b45737a793c0b2dcf0240e5ee5"))
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(let ((commit "2f3c3ea7b301f9b45737a793c0b2dcf0240e5ee5"))
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(package
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(package
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