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A spatially-aware cell clustering algorithm is provided with cluster significance assessment. It comprises four key modules: spatially-aware cell-gene co-embedding, cell clustering, signature gene identification, and cluster significant assessment. More details can be referred to Peng Xie, et al. (2025) <doi:10.1016/j.cell.2025.05.035>.
| Version: | 0.1.0 |
| Depends: | R (≥ 4.0.0) |
| Imports: | Rcpp (≥ 1.0.10), furrr, future, ggplot2, irlba, DR.SC, PRECAST, ProFAST, Matrix, ade4, progress, pbapply, dplyr, Seurat, stats, utils |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | knitr, rmarkdown, scater, ggrepel, RANN, grDevices |
| Published: | 2025-11-17 |
| DOI: | 10.32614/CRAN.package.coFAST (may not be active yet) |
| Author: | Wei Liu [aut, cre], Xiao Zhang [aut], Yi Yang [aut], Peng Xie [aut], Chengqi Lin [aut], Jin Liu [aut] |
| Maintainer: | Wei Liu <liuweideng at gmail.com> |
| BugReports: | https://github.com/feiyoung/coFAST/issues |
| License: | GPL-3 |
| URL: | https://github.com/feiyoung/coFAST |
| NeedsCompilation: | yes |
| Materials: | README |
| CRAN checks: | coFAST results |
| Reference manual: | coFAST.html , coFAST.pdf |
| Vignettes: |
coFAST: NSCLC CosMx data coembedding (source, R code) |
| Package source: | coFAST_0.1.0.tar.gz |
| Windows binaries: | r-devel: not available, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): coFAST_0.1.0.tgz, r-oldrel (x86_64): coFAST_0.1.0.tgz |
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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.
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