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gnu: Add r-cellchat.

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* gnu/packages/bioinformatics.scm (r-cellchat): New variable.
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Ricardo Wurmus 2021-03-05 15:02:31 +01:00
parent c0c3f7466c
commit f5c3e8e2ec
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gnu/packages/bioinformatics.scm
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@ -10859,6 +10859,72 @@ explore and perform basic analysis of single cell sequencing data coming from
droplet sequencing. It has been particularly tailored for Drop-seq.")
(license license:gpl3))))
(define-public r-cellchat
(let ((commit
"21edd226ca408e4c413408f98562d71ee0b54e5d")
(revision "1"))
(package
(name "r-cellchat")
(version (git-version "1.0.0" revision commit))
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/sqjin/CellChat")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32
"0cvzl9mi8jjznpql2gv67swnk1dndn3a2h22z5l84h7lwpwjmh53"))
(snippet
'(for-each delete-file '("src/CellChat.so"
"src/CellChat_Rcpp.o"
"src/RcppExports.o")))))
(properties `((upstream-name . "CellChat")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-circlize" ,r-circlize)
("r-colorspace" ,r-colorspace)
("r-complexheatmap" ,r-complexheatmap)
("r-cowplot" ,r-cowplot)
("r-dplyr" ,r-dplyr)
("r-expm" ,r-expm)
("r-fnn" ,r-fnn)
("r-forcats" ,r-forcats)
("r-future" ,r-future)
("r-future-apply" ,r-future-apply)
("r-gg-gap" ,r-gg-gap)
("r-ggalluvial" ,r-ggalluvial)
("r-ggplot2" ,r-ggplot2)
("r-ggrepel" ,r-ggrepel)
("r-igraph" ,r-igraph)
("r-irlba" ,r-irlba)
("r-magrittr" ,r-magrittr)
("r-matrix" ,r-matrix)
("r-nmf" ,r-nmf)
("r-patchwork" ,r-patchwork)
("r-pbapply" ,r-pbapply)
("r-rcolorbrewer" ,r-rcolorbrewer)
("r-rcpp" ,r-rcpp)
("r-rcppeigen" ,r-rcppeigen)
("r-reshape2" ,r-reshape2)
("r-reticulate" ,r-reticulate)
("r-rspectra" ,r-rspectra)
("r-rtsne" ,r-rtsne)
("r-scales" ,r-scales)
("r-shape" ,r-shape)
("r-sna" ,r-sna)
("r-stringr" ,r-stringr)
("r-svglite" ,r-svglite)))
(native-inputs `(("r-knitr" ,r-knitr)))
(home-page "https://github.com/sqjin/CellChat")
(synopsis "Analysis of cell-cell communication from single-cell transcriptomics data")
(description
"This package infers, visualizes and analyzes the cell-cell
communication networks from scRNA-seq data.")
(license license:gpl3))))
(define-public sambamba
(package
(name "sambamba")