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Bioinformatics Advance Access originally published online on October 20, 2008
Bioinformatics 2008 24(24):2936-2937; doi:10.1093/bioinformatics/btn540
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© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

REJECTOR: software for population history inference from genetic data via a rejection algorithm

Matthew J. Jobin 1,* and Joanna L. Mountain 1,2

1Department of Anthropology, Stanford University, Stanford, CA 94305 and 223andMe, Inc., Mountain View, CA, USA

*To whom correspondence should be addressed.


  Abstract

Summary: We introduce REJECTOR, software for parameter estimation and comparison of alternate models of population history from genetic data via a rejection algorithm. Through coalescent simulation, REJECTOR generates numerous gene genealogies, and hence simulated data, under a model of population history specified by the user. Summary statistics derived from such simulated data are compared with observed statistics, leading to acceptance or rejection of a given set of parameter values. We performed tests of the software using known parameter values in order to assess the inferential power provided by each summary statistic. The tests demonstrate the precision and accuracy of estimation made possible using this approach.

Availability: http://www.rejector.org

Contact: mjobin{at}stanford.edu

Supplementary Information: Supplementary data are available at http://www.rejector.org/guide.pdf

Associate Editor: Martin Bishop

Received on July 4, 2008; revised on September 16, 2008; accepted on October 15, 2008

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