Fregene: simulation of realistic sequence-level data in populations and ascertained samples.

ABSTRACT:

Background

FREGENE simulates sequence-level data over large genomic regions in large populations. Because, unlike coalescent simulators, it works forwards through time, it allows complex scenarios of selection, demography, and recombination to be modelled simultaneously. Detailed tracking of sites under selection is implemented in FREGENE and provides the opportunity to test theoretical predictions and gain new insights into mechanisms of selection. We describe here main functionalities of both FREGENE and SAMPLE, a companion program that can replicate association study datasets.

Results

We report detailed analyses of six large simulated datasets that we have made publicly available. Three demographic scenarios are modelled: one panmictic, one substructured with migration, a

SUBMITTER: Chadeau-Hyam M 

PROVIDER: S-EPMC2542380 | biostudies-literature | 2008 Sep

REPOSITORIES: biostudies-literature