Implements the algorithm described in Barron, M., and Li, J. (Not yet published). This algorithm clusters samples from multiple ordered populations, links the clusters across the conditions and identifies marker genes for these changes. The package was designed for scRNA-Seq data but is also applicable to many other data types, just replace cells with samples and genes with variables. The package also contains functions for estimating the parameters for SparseMDC as outlined in the paper. We recommend that users further select their marker genes using the magnitude of the cluster centers.
| Version: | 0.99.5 |
| Depends: | R (≥ 3.1.0), doRNG |
| Imports: | stats, foreach, parallel, doParallel |
| Suggests: | knitr, rmarkdown |
| Published: | 2018-08-02 |
| DOI: | 10.32614/CRAN.package.SparseMDC |
| Author: | Martin Barron [aut], Jun Li [aut, cre] |
| Maintainer: | Jun Li <jun.li at nd.edu> |
| License: | GPL-3 |
| NeedsCompilation: | no |
| CRAN checks: | SparseMDC results |
| Reference manual: | SparseMDC.html , SparseMDC.pdf |
| Vignettes: |
sparseMDC (source, R code) |
| Package source: | SparseMDC_0.99.5.tar.gz |
| Windows binaries: | r-devel: SparseMDC_0.99.5.zip, r-release: SparseMDC_0.99.5.zip, r-oldrel: SparseMDC_0.99.5.zip |
| macOS binaries: | r-release (arm64): SparseMDC_0.99.5.tgz, r-oldrel (arm64): SparseMDC_0.99.5.tgz, r-release (x86_64): SparseMDC_0.99.5.tgz, r-oldrel (x86_64): SparseMDC_0.99.5.tgz |
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