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Bioinformatics Advance Access originally published online on September 17, 2009
Bioinformatics 2009 25(21):2845-2847; doi:10.1093/bioinformatics/btp534
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© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

COMPASS: a program for generating serial samples under an infinite sites model

Mattias Jakobsson

Department of Evolutionary Biology, Uppsala University, Norbyvägen 18D, 75236 Uppsala, Sweden


  Abstract

Summary: The program COMPASS can generate samples that have been collected at various points in time from a population that is evolving according to a Wright–Fisher model. The samples are generated using coalescence simulations permitting various demographic scenarios and the program uses an infinite sites model to generate polymorphism data for the samples. By generating serially sampled population-genetic data, COMPASS allows investigating properties of polymorphism data that has been collected at different time points, and aid in making inference from ancient polymorphism data.

Availability: The program and the manual are available at: http://www.egs.uu.se/evbiol/Research/JakobssonLab/compass.html

Contact: mattias.jakobsson{at}ebc.uu.se

Associate Editor: Jeffrey Barrett

Received on July 1, 2009; revised on August 14, 2009; accepted on September 4, 2009

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