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gnu: Add r-metacell.

* gnu/packages/bioinformatics.scm (r-metacell): New variable.
Afkhami, Navid 2023-10-13 16:14:43 +00:00 committed by Ricardo Wurmus
parent 54274a5a3b
commit 48f9484483
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@ -10285,6 +10285,66 @@ figures. This tool will create clean markdown reports about what you just
discovered.") discovered.")
(license license:gpl3)))) (license license:gpl3))))
(define-public r-metacell
(let ((commit "d6a6926d103ee0cb34a611c753572429c94a53d9")
(revision "1"))
(package
(name "r-metacell")
(version (git-version "0.3.41" revision commit))
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/tanaylab/metacell/")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32 "0zrsckr3y35x37mj3ibm6scyqx925s84wzrz1i42fnm9n3msc265"))))
(properties `((upstream-name . "metacell")))
(build-system r-build-system)
(propagated-inputs (list r-cluster
r-cowplot
r-data-table
r-dbscan
r-domc
r-dplyr
r-entropy
r-ggplot2
r-graph
r-igraph
r-kernsmooth
r-magrittr
r-matrix
r-matrixstats
r-pdist
r-pheatmap
r-plyr
r-rcolorbrewer
r-rcurl
r-rgraphviz
r-slam
r-singlecellexperiment
r-svglite
r-tgconfig
r-tgstat
r-tgutil
r-tidyr
r-umap
r-umap
r-zoo))
(native-inputs (list r-knitr))
(home-page "https://github.com/tanaylab/metacell/")
(synopsis "Meta cell analysis for single cell RNA-seq data")
(description
"This package facilitates the analysis of single-cell RNA-seq UMI matrices.
It does this by computing partitions of a cell similarity graph into
small homogeneous groups of cells, which are defined as metacells (MCs).
The derived MCs are then used for building different representations of
the data, allowing matrix or 2D graph visualization forming a basis for
analysis of cell types, subtypes, transcriptional gradients,cell-cycle
variation, gene modules and their regulatory models and more.")
(license license:expat))))
(define-public r-snapatac (define-public r-snapatac
(package (package
(name "r-snapatac") (name "r-snapatac")