Tools for Polyploid Microsatellite Analysis
Description
polysat is a collection of tools to handle microsatellite
data of any ploidy (and samples of mixed ploidy) where allele
copy number is not known in partially heterozygous genotypes.
It can import and export data in ABI GeneMapper, Structure,
ATetra, Tetrasat/Tetra, GenoDive, SPAGeDi, and binary
presence/absence formats. It can calculate pairwise
differences between individuals using a stepwise mutation model
or infinite alleles model. It can assist the user in estimating
the ploidy of samples, and lastly it can estimate allele
frequencies in populations and calculate pairwise Fst values
based on those frequencies.