RaceID: Identification of Cell Types, Inference of Lineage Trees, andPrediction of Noise Dynamics from Single-Cell RNA-Seq Data
Application of 'RaceID' allows inference of cell types and prediction of lineage trees by the 'StemID2' algorithm (Herman, J.S., Sagar, Grun D. (2018) <doi:10.1038/nmeth.4662>). 'VarID2' is part of this package and allows quantification of biological gene expression noise at single-cell resolution (Rosales-Alvarez, R.E., Rettkowski, J., Herman, J.S., Dumbovic, G., Cabezas-Wallscheid, N., Grun, D. (2023) <doi:10.1186/s13059-023-02974-1>).
| Version: | 0.3.9 |
| Depends: | R (≥ 3.5.0) |
| Imports: | coop, compiler,cluster,FateID,FNN,fpc,ggplot2, grDevices,harmony,ica,igraph,irlba,leiden,locfit, methods,MASS,Matrix,matrixStats, parallel,pheatmap,princurve,quadprog,randomForest,runner,Rcpp,RColorBrewer,Rtsne,umap,vegan |
| LinkingTo: | Rcpp (≥ 0.11.0) |
| Suggests: | batchelor,DESeq2,knitr,rmarkdown,SingleCellExperiment,slingshot,SummarizedExperiment |
| Published: | 2024-11-24 |
| DOI: | 10.32614/CRAN.package.RaceID |
| Author: | Dominic Grün [aut, cre] |
| Maintainer: | Dominic Grün <dominic.gruen at gmail.com> |
| License: | GPL-3 |
| NeedsCompilation: | yes |
| SystemRequirements: | C++17 |
| CRAN checks: | RaceID results |
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