Given a log-transformed expression matrix and list of informative genes: subsample informative genes, cluster samples using shared nearest neighbors clustering, estimate missing expression values with the distribution mean of means extrapolated from these cell clusterings, and return an imputed expression matrix. See Tracy, S., Yuan, G.C. and Dries, R. (2019) <doi:10.1186/s12859-019-2977-0> for more details.
| Version: | 1.0.3 |
| Depends: | R (≥ 3.4.0), utils |
| Imports: | data.table, dbscan (≥ 1.1-3), igraph (≥ 1.2.4.1), irlba, Matrix, methods, parallel, reticulate (≥ 1.14) |
| Suggests: | knitr, rmarkdown |
| Published: | 2020-07-18 |
| Author: | Sam Tracy & Ruben Dries |
| Maintainer: | Sam Tracy <seasamgo at gmail.com> |
| BugReports: | http://github.com/seasamgo/rescue/issues |
| License: | GPL-2 | GPL-3 |
| URL: | https://github.com/seasamgo/rescue |
| NeedsCompilation: | no |
| CRAN checks: | rescue results |
| Reference manual: | rescue.pdf |
| Package source: | rescue_1.0.3.tar.gz |
| Windows binaries: | r-devel: rescue_1.0.3.zip, r-release: rescue_1.0.3.zip, r-oldrel: rescue_1.0.3.zip |
| macOS binaries: | r-release (arm64): rescue_1.0.3.tgz, r-oldrel (arm64): rescue_1.0.3.tgz, r-release (x86_64): rescue_1.0.3.tgz, r-oldrel (x86_64): rescue_1.0.3.tgz |
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