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.

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Description file content

Package
rhierbaps
Type
Package
Title
Clustering Genetic Sequence Data Using the HierBAPS Algorithm
Version
1.1.0
Description
Implements the hierarchical Bayesian analysis of populations structure (hierBAPS) algorithm of Cheng et al. (2013) 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.
License
MIT + file LICENSE
Encoding
UTF-8
LazyData
true
Imports
ape, purrr, utils, ggplot2, LambertW, matrixStats
RoxygenNote
6.0.1
Suggests
knitr, rmarkdown, ggtree, phytools, testthat
VignetteBuilder
knitr
URL
BugReports
https://github.com/gtonkinhill/rhierbaps/issues
NeedsCompilation
no
Packaged
2018-10-10 13:42:10 UTC; gt4
Author
Gerry Tonkin-Hill [cre, aut]
Maintainer
Gerry Tonkin-Hill
Repository
CRAN
Date/Publication
2018-10-10 14:10:03 UTC

install.packages('rhierbaps')

1.1.0

2 months ago

https://github.com/gtonkinhill/rhierbaps

Gerry Tonkin-Hill

MIT + file LICENSE

Imports

ape, purrr, utils, ggplot2, LambertW, matrixStats

Suggests

knitr, rmarkdown, ggtree, phytools, testthat

Discussions