The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.
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 and 'WeightedCluster' <doi:10.12682/lives.2296-1658.2013.24> <https://mephisto.unige.ch/weightedcluster/> for weighted clustering on metacells. We also recommend installing 'scater' Bioconductor package <doi:10.18129/B9.bioc.scater> <https://bioconductor.org/packages/release/bioc/html/scater.html>.
| Version: | 1.1 |
| Depends: | R (≥ 4.0.0) |
| Imports: | igraph, RANN, 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, WeightedCluster, testthat (≥ 3.0.0) |
| Published: | 2025-12-16 |
| DOI: | 10.32614/CRAN.package.SuperCell |
| Author: | Mariia Bilous [aut], Matei Teleman [cre] |
| Maintainer: | Matei Teleman <matei.teleman at unil.ch> |
| BugReports: | https://github.com/GfellerLab/SuperCell/issues |
| License: | GPL-3 |
| NeedsCompilation: | no |
| Additional_repositories: | https://mteleman.github.io/drat2 |
| Materials: | README |
| CRAN checks: | SuperCell results |
| 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) |
| Package source: | SuperCell_1.1.tar.gz |
| Windows binaries: | r-devel: SuperCell_1.1.zip, r-release: SuperCell_1.1.zip, r-oldrel: SuperCell_1.1.zip |
| macOS binaries: | r-release (arm64): SuperCell_1.1.tgz, r-oldrel (arm64): SuperCell_1.1.tgz, r-release (x86_64): SuperCell_1.1.tgz, r-oldrel (x86_64): SuperCell_1.1.tgz |
| Old sources: | SuperCell archive |
| Reverse imports: | SuperCellCyto |
Please use the canonical form https://CRAN.R-project.org/package=SuperCell to link to this page.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.