Jan 18, 2016

AdmixSim: A Forward-Time Simulator for Various and Complex Scenarios of Population Admixture

BioRxiv : the Preprint Server for Biology
Xiong YangShuhua Xu

Abstract

Background: Population admixture has been a common phenomenon in human, animals and plants, and plays a very important role in shaping individual genetic architecture and population genetic diversity. Inference of population admixture, however, is challenging and typically relies on in silico simulation. We are aware of the lack of a computer tool for such a purpose, especially a simulator is not available for generating data under various and complex admixture scenarios. Results: Here we developed a forward-time simulator (AdmixSim) under standard Wright Fisher model, which can simulate admixed populations with: 1) multiple ancestral populations; 2) multiple waves of admixture events; 3) fluctuating population size; and 4) fluctuating admixture proportions. Results of analysis of the simulated data by AdmixSim show that our simulator can fast and accurately generate data resemble real one. We included in AdmixSim all possible parameters that allow users to modify and simulate any kinds of admixture scenarios easily so that it is very flexible. AdmixSim records recombination break points and trace of each chromosomal segment from different ancestral populations, with which users can easily do further analysis and comparative st...Continue Reading

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Mentioned in this Paper

Size
Recombination, Genetic
DNA Breaks
Chromosomes
Simulation
Analysis
DSP protein, human
Population Group
Comparative Study Research
Shapes

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