CRAN: Package scistreer

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年06月15日

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

Documentation:

Reference manual: scistreer.html , scistreer.pdf

Downloads:

Package source: scistreer_1.2.0.tar.gz

Windows binaries: r-devel: scistreer_1.2.0.zip, r-release: scistreer_1.2.0.zip, r-oldrel: scistreer_1.2.0.zip

macOS binaries: r-release (arm64): scistreer_1.2.0.tgz, r-oldrel (arm64): scistreer_1.2.0.tgz, r-release (x86_64): scistreer_1.2.0.tgz, r-oldrel (x86_64): scistreer_1.2.0.tgz

Old sources: scistreer archive

Reverse dependencies:

Reverse imports: numbat

Linking:

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