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Bioinformatics Advance Access originally published online on July 22, 2004
Bioinformatics 2004 20(18):3673-3675; doi:10.1093/bioinformatics/bth417
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Bioinformatics vol. 20 issue 18 © Oxford University Press 2004; all rights reserved.

Applications Note

SelSim: a program to simulate population genetic data with natural selection and recombination

Chris C. A. Spencer * and Graham Coop

Department of Statistics, 1 South Parks Road, Oxford OX1 3TG, UK

Received on April 22, 2004; revised on June 22, 2004; accepted on July 6, 2004
Advance Access Publication July 22, 2004

Summary: SelSim is a program for Monte Carlo simulation of DNA polymorphism data for a recombining region within which a single bi-allelic site has experienced natural selection. SelSim allows simulation from either a fully stochastic model of, or deterministic approximations to, natural selection within a coalescent framework. A number of different mutation models are available for simulating surrounding neutral variation. The package enables a detailed exploration of the effects of different models and strengths of selection on patterns of diversity. This provides a tool for the statistical analysis of both empirical data and methods designed to detect natural selection.

Availability: http://www.stats.ox.ac.uk/mathgen/software.html

Supplementary information: http://www.stats.ox.ac.uk/mathgen/software.html

Contact: spencer{at}stats.ox.ac.uk

* To whom correspondence should be addressed.


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