SuperCell
Simplification of scRNA-Seq Data by Merging Together Similar Cells
Description
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>.
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CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check History
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Jun 9, 2026
ERROR 12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Jun 8, 2026
package dependencies
Packages required but not available: 'weights', 'Hmisc' Packages suggested but not available for checking: 'scater', 'Seurat', 'bluster', 'velocyto.R' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE May 2, 2026
ERROR 11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 25, 2026
package dependencies
Package required but not available: ‘weights’ Package suggested but not available for checking: ‘velocyto.R’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Apr 10, 2026
package dependencies
Packages suggested but not available for checking: 'scater', 'velocyto.R'
package dependencies
Package suggested but not available for checking: ‘velocyto.R’
package dependencies
Package suggested but not available for checking: 'velocyto.R'
ERROR 10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 9, 2026
re-building of vignette outputs
Error(s) in re-building vignettes: ... --- re-building ‘a_SuperCell.Rmd’ using rmarkdown Quitting from a_SuperCell.Rmd:239-244 [Seurat] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in ` ...[truncated]... vs_independent_sample_processing.Rmd’ using rmarkdown --- finished re-building ‘b_Combined_vs_independent_sample_processing.Rmd’ SUMMARY: processing the following file failed: ‘a_SuperCell.Rmd’ Error: Vignette re-building failed. Execution halted
package dependencies
Packages suggested but not available for checking: 'scater', 'velocyto.R'
package dependencies
Package suggested but not available for checking: ‘velocyto.R’
package dependencies
Package suggested but not available for checking: 'velocyto.R'
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
package dependencies
Packages suggested but not available for checking: 'scater', 'velocyto.R'
package dependencies
Package suggested but not available for checking: ‘velocyto.R’
package dependencies
Package suggested but not available for checking: 'velocyto.R'