scistreer: Maximum-Likelihood Perfect Phylogeny Inference at Scale
Fast maximum-likelihood phylogeny inference from noisy single-cell data using the 'ScisTree' algorithm by Yufeng Wu (2019) <doi:10.1093/bioinformatics/btz676>. 'scistreer' provides an 'R' interface and improves speed via 'Rcpp' and 'RcppParallel', making the method applicable to massive single-cell datasets (>10,000 cells).
| Version: | 1.2.0 |
| Depends: | R (≥ 4.1.0) |
| Imports: | ape,dplyr,ggplot2,ggtree,igraph,parallelDist,patchwork,phangorn,Rcpp,reshape2,RcppParallel,RhpcBLASctl,stringr,tidygraph |
| LinkingTo: | Rcpp,RcppArmadillo,RcppParallel |
| Suggests: | testthat (≥ 3.0.0) |
| Published: | 2023-06-15 |
| DOI: | 10.32614/CRAN.package.scistreer |
| Author: | Teng Gao [cre, aut], Evan Biederstedt [aut], Peter Kharchenko [aut], Yufeng Wu [aut] |
| Maintainer: | Teng Gao <tgaoteng at gmail.com> |
| License: | GPL-3 |
| URL: | https://github.com/kharchenkolab/scistreer,https://kharchenkolab.github.io/scistreer/ |
| NeedsCompilation: | yes |
| SystemRequirements: | GNU make |
| Materials: | README |
| CRAN checks: | scistreer results |
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