GENOME: a rapid coalescent-based whole genome simulator

Abstract

Summary: GENOME proposes a rapid coalescent-based approach to simulate whole genome data. In addition to features of standard coalescent simulators, the program allows for recombination rates to vary along the genome and for flexible population histories. Within small regions, we have evaluated samples simulated by GENOME to verify that GENOME provides the expected LD patterns and frequency spectra. The program can be used to study the sampling properties of any statistic for a whole genome study. Availability: The program and C++ source code are available online at http://www.sph.umich.edu/csg/liang/genome/ Contact:lianglim@umich.edu Supplementary information: Supplementary data are available at Bioinformatics online.