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. (2022) <doi:10.1101/2022.06.26.497672>.
| Version: | 1.2 |
| Depends: | parallel, gtools, R (≥ 4.0.0) |
| Imports: | GiRaF, MASS, Matrix, mclust, methods, purrr, utils, Seurat, cowplot, scater, pbapply, patchwork, ggthemes, dplyr, ggplot2, stats, DR.SC, scales, Rcpp (≥ 1.0.5) |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | knitr, rmarkdown |
| Published: | 2022-07-11 |
| Author: | Wei Liu [aut, cre], Yi Yang [aut], Jin Liu [aut] |
| Maintainer: | Wei Liu <wei.liu at duke-nus.edu.sg> |
| 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 PRECAST: simulation |
| Package source: | PRECAST_1.2.tar.gz |
| Windows binaries: | r-devel: PRECAST_1.2.zip, r-release: PRECAST_1.2.zip, r-oldrel: PRECAST_1.2.zip |
| macOS binaries: | r-release (arm64): PRECAST_1.2.tgz, r-oldrel (arm64): PRECAST_1.2.tgz, r-release (x86_64): PRECAST_1.2.tgz, r-oldrel (x86_64): PRECAST_1.2.tgz |
| Old sources: | PRECAST archive |
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