ARGON: fast, whole-genome simulation of the discrete time Wright-fisher process

We present a simulator (ARGON) for the DTWF process that scales up to hundreds of thousands of samples and whole-chromosome lengths, with a time/memory performance comparable or superior to currently available methods for coalescent simulation. The simulator supports arbitrary demographic history, migration, Newick tree output, variable mutation/recombination rates and gene conversion, and efficiently outputs pairwise identical-by-descent sharing data. Availability: ARGON (version 0.1) is written in Java, open source, and freely available at https://github.com/pierpal/ARGON. Contact: ppalama@hsph.harvard.edu Supplementary information: Supplementary data are available at Bioinformatics online.
Source: Bioinformatics - Category: Bioinformatics Authors: Tags: GENETICS AND POPULATION ANALYSIS Source Type: research