rhierbaps: Clustering Genetic Sequence Data Using the HierBAPS Algorithm

Implements the hierarchical Bayesian analysis of populations structure (hierBAPS) algorithm of Cheng et al. (2013) <doi:10.1093/molbev/mst028> for clustering DNA sequences from multiple sequence alignments in FASTA format. The implementation includes improved defaults and plotting capabilities and unlike the original 'MATLAB' version removes singleton SNPs by default.

Version:	1.1.4
Imports:	ape, purrr, utils, ggplot2, matrixStats, patchwork, methods
Suggests:	knitr, rmarkdown, ggtree, phytools, testthat, formatR
Published:	2022-11-18
DOI:	10.32614/CRAN.package.rhierbaps
Author:	Gerry Tonkin-Hill [cre, aut]
Maintainer:	Gerry Tonkin-Hill <g.tonkinhill at gmail.com>
BugReports:	https://github.com/gtonkinhill/rhierbaps/issues
License:	MIT + file LICENSE
URL:	https://github.com/gtonkinhill/rhierbaps
NeedsCompilation:	no
Citation:	rhierbaps citation info
Materials:	README, NEWS
CRAN checks:	rhierbaps results

Documentation:

Reference manual:	rhierbaps.html , rhierbaps.pdf
Vignettes:	Introduction to rhierbaps (source, R code)

Downloads:

Package source:	rhierbaps_1.1.4.tar.gz
Windows binaries:	r-devel: rhierbaps_1.1.4.zip, r-release: rhierbaps_1.1.4.zip, r-oldrel: rhierbaps_1.1.4.zip
macOS binaries:	r-release (arm64): rhierbaps_1.1.4.tgz, r-oldrel (arm64): rhierbaps_1.1.4.tgz, r-release (x86_64): rhierbaps_1.1.4.tgz, r-oldrel (x86_64): rhierbaps_1.1.4.tgz
Old sources:	rhierbaps archive

Linking:

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