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Bioinformatics Advance Access originally published online on December 6, 2006
Bioinformatics 2007 23(4):520-521; doi:10.1093/bioinformatics/btl622
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

msHOT: modifying Hudson's ms simulator to incorporate crossover and gene conversion hotspots

Garrett Hellenthal 1,* and Matthew Stephens 2

1 Department of Statistics, University of Oxford 1 South Parks Road, Oxford OX1 3TG, UK
2 Department of Statistics, University of Chicago 5734 S. University Avenue, Eckhart 126, Chicago, IL 60637, USA

*To whom correspondence should be addressed.


  Abstract

Summary: We have incorporated both crossover and gene conversion hotspots into an existing coalescent-based program for simulating genetic variation data for a sample of chromosomes from a population.

Availability: The source code for msHOT is available at http://home.uchicago.edu/~rhudson1, along with accompanying instructions.

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

Associate Editor: Keith A Crandall

Received on September 28, 2006; revised on November 21, 2006; accepted on November 28, 2006

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