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authorRicardo Wurmus <rekado@elephly.net>2021-02-18 16:09:40 +0100
committerRicardo Wurmus <rekado@elephly.net>2021-02-18 16:11:38 +0100
commit83607059488d687f34a654676b7009a53786c33b (patch)
tree3921781f8be8569074ca3f56c189670bd96c3e20
parent19e841768978c5f356a6e6059237075b01d8a061 (diff)
gnu: Add r-archr.
* gnu/packages/bioinformatics.scm (r-archr): New variable.
-rw-r--r--gnu/packages/bioinformatics.scm49
1 files changed, 49 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index f3e0e41e4d..4e7e49fecf 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7203,6 +7203,55 @@ clustering analysis, differential analysis, motif inference and exploration of
single cell ATAC-seq sequencing data.")
(license license:gpl3)))
+(define-public r-archr
+ (let ((commit "46b519ffb6f73edf132497ac31650d19ef055dc1")
+ (revision "1"))
+ (package
+ (name "r-archr")
+ (version (git-version "1.0.0" revision commit))
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/GreenleafLab/ArchR")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1zj3sdfhgn2q2256fmz61a92vw1wylyck632d7842d6knd0v92v8"))))
+ (properties `((upstream-name . "ArchR")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-chromvar" ,r-chromvar)
+ ("r-complexheatmap" ,r-complexheatmap)
+ ("r-data-table" ,r-data-table)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-ggrepel" ,r-ggrepel)
+ ("r-gridextra" ,r-gridextra)
+ ("r-gtable" ,r-gtable)
+ ("r-gtools" ,r-gtools)
+ ("r-magrittr" ,r-magrittr)
+ ("r-matrix" ,r-matrix)
+ ("r-matrixstats" ,r-matrixstats)
+ ("r-motifmatchr" ,r-motifmatchr)
+ ("r-nabor" ,r-nabor)
+ ("r-plyr" ,r-plyr)
+ ("r-rcpp" ,r-rcpp)
+ ("r-rhdf5" ,r-rhdf5)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-stringr" ,r-stringr)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)
+ ("r-uwot" ,r-uwot)))
+ (home-page "https://github.com/GreenleafLab/ArchR")
+ (synopsis "Analyze single-cell regulatory chromatin in R")
+ (description
+ "This package is designed to streamline scATAC analyses in R.")
+ (license license:gpl2+))))
+
(define-public r-scde
(package
(name "r-scde")