PopGenKit: Useful functions for (batch) file conversion and data resampling in microsatellite datasets

There are two main purposes to this package. The first is to allow batch conversion of Genepop (Rousset 2008) input files for use with Arlequin (Excoffier and Lischer 2010), which has a simple GUI to analyze batch files. Two commonly used simulation software, BottleSim (Kuo & Janzen 2003) and Easypop (Balloux 2001) produce Genepop output files that can be analyzed this way. There are also functions to convert to and from BottleSim format, to quickly produce allele frequency tables or to convert a file directly for use in ordination analyses (e.g. principal component analysis). This package also includes functions to calculate allele rarefaction curves, confidence intervals on heterozygosity and allelic richness with resampling strategies (bootstrap and jackknife).

Package details

AuthorSebastien Rioux Paquette
MaintainerSebastien Rioux Paquette <sebastien.riouxpaquette@gmail.com>
Package repositoryView on CRAN
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PopGenKit documentation built on May 2, 2019, 3:33 p.m.