Population genetics in Biopython
Biopython makes available Population Genetics functionality in the Bio.PopGen module.
Currently 3 modules are available:
- Access to Genepop methods (exact tests for Hardy–Weinberg equilibrium, population differentiation, genotypic disequilibrium, F-statistics, null allele frequencies, allele size-based statistics for microsatellites and much more).
- Coalescent simulation via SimCoal2
- Selection detection via fdist2
Documentation on how to access Genepop using Bio.PopGen can be found here.
CoaSim (coalescent simulation) also exposes a Python interface.
Any notes (or discussion) about possible future developments should be restricted to the PopGen development page.