A flexible framework for rapid genome analysis and interpretation

Haplotype based scans for selection

Infer a tree sequence from genetic variation data.

GONE: Scripts, programs and an example data set

RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors

predicting DFE and alpha from polymorphism data

Estimation of per-individual inbreeding coefficients under a probabilistic framework

Software for detecting introgression using supervised machine learning

Modified or extracted from other programs

modified version of Hudson's ms allowing for finer control and tracking of migrant genealogies

Efficient coalescent simulations in a spatial continuum