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