An efficient data integration method is provided for multiple spatial transcriptomics data with non-cluster-relevant effects such as the complex batch effects. It unifies spatial factor analysis simultaneously with spatial clustering and embedding alignment, requiring only partially shared cell/domain clusters across datasets. More details can be referred to Wei Liu, et al. (2023) <doi:10.1038/s41467-023-35947-w>.
| Version: | 1.6.5 |
| Depends: | parallel, gtools, R (≥ 4.0.0) |
| Imports: | GiRaF, MASS, Matrix, mclust, methods, purrr, utils, Seurat, cowplot, patchwork, scater, pbapply, ggthemes, dplyr, ggplot2, stats, DR.SC, scales, ggpubr, graphics, colorspace, Rcpp (≥ 1.0.5) |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | knitr, rmarkdown |
| Published: | 2024-03-19 |
| DOI: | 10.32614/CRAN.package.PRECAST |
| Author: | Wei Liu [aut, cre], Yi Yang [aut], Jin Liu [aut] |
| Maintainer: | Wei Liu <liuweideng at gmail.com> |
| BugReports: | https://github.com/feiyoung/PRECAST/issues |
| License: | GPL-3 |
| URL: | https://github.com/feiyoung/PRECAST |
| NeedsCompilation: | yes |
| Materials: | README |
| CRAN checks: | PRECAST results |
| Reference manual: | PRECAST.pdf |
| Vignettes: |
PRECAST: Human Breast Cancer Data Analysis PRECAST: DLPFC Single Sample Analysis PRECAST: Four DLPFC Sample Analysis PRECAST PRECAST: simulation |
| Package source: | PRECAST_1.6.5.tar.gz |
| Windows binaries: | r-devel: PRECAST_1.6.5.zip, r-release: PRECAST_1.6.5.zip, r-oldrel: PRECAST_1.6.5.zip |
| macOS binaries: | r-release (arm64): PRECAST_1.6.5.tgz, r-oldrel (arm64): PRECAST_1.6.5.tgz, r-release (x86_64): PRECAST_1.6.5.tgz, r-oldrel (x86_64): PRECAST_1.6.5.tgz |
| Old sources: | PRECAST archive |
| Reverse imports: | ProFAST |
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