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: | 1.1.3 |
| Imports: | ape, purrr, utils, ggplot2, matrixStats, patchwork |
| Suggests: | knitr, rmarkdown, ggtree, phytools, testthat, formatR |
| Published: | 2019-12-11 |
| 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 |
| Reference manual: | rhierbaps.pdf |
| Vignettes: |
Introduction to rhierbaps |
| Package source: | rhierbaps_1.1.3.tar.gz |
| Windows binaries: | r-devel: rhierbaps_1.1.3.zip, r-release: rhierbaps_1.1.3.zip, r-oldrel: rhierbaps_1.1.3.zip |
| macOS binaries: | r-release: rhierbaps_1.1.3.tgz, r-oldrel: rhierbaps_1.1.3.tgz |
| Old sources: | rhierbaps archive |
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