CRAN: Package SuperCell

SuperCell: Simplification of scRNA-Seq Data by Merging Together Similar Cells

Aggregates large single-cell data into metacell dataset by merging together gene expression of very similar cells. 'SuperCell' uses 'velocyto.R' <doi:10.1038/s41586-018-0414-6> <https://github.com/velocyto-team/velocyto.R> for RNA velocity. We also recommend installing 'scater' Bioconductor package <doi:10.18129/B9.bioc.scater> <https://bioconductor.org/packages/release/bioc/html/scater.html>.

Version: 1.0.1

Depends: R (≥ 4.0.0)

Imports: igraph, RANN, WeightedCluster, corpcor, weights, Hmisc, Matrix, matrixStats, plyr, irlba, grDevices, patchwork, ggplot2, umap, entropy, Rtsne, dbscan, scales, plotfunctions, proxy, methods, rlang

Suggests: SingleCellExperiment, SummarizedExperiment, cowplot, scater, Seurat, knitr, rmarkdown, remotes, bluster, velocyto.R, testthat (≥ 3.0.0)

Published: 2024年10月25日

DOI: 10.32614/CRAN.package.SuperCell

Author: Mariia Bilous [aut], Leonard Herault [cre]

Maintainer: Leonard Herault <leonard.herault at unil.ch>

BugReports: https://github.com/GfellerLab/SuperCell/issues

License: GPL-3

NeedsCompilation: no

Additional_repositories: https://mteleman.github.io/drat

Materials: README

CRAN checks: SuperCell results

Documentation:

Reference manual: SuperCell.html , SuperCell.pdf

Vignettes: Example of the SuperCell pipeline (source, R code)
Combined or independent SuperCell runs for different samples (source, R code)

Downloads:

Package source: SuperCell_1.0.1.tar.gz

Windows binaries: r-devel: SuperCell_1.0.1.zip, r-release: SuperCell_1.0.1.zip, r-oldrel: SuperCell_1.0.1.zip

macOS binaries: r-release (arm64): SuperCell_1.0.1.tgz, r-oldrel (arm64): SuperCell_1.0.1.tgz, r-release (x86_64): SuperCell_1.0.1.tgz, r-oldrel (x86_64): SuperCell_1.0.1.tgz

Old sources: SuperCell archive

Reverse dependencies:

Reverse imports: SuperCellCyto

Linking:

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