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Bioinformatics Advance Access originally published online on October 9, 2008
Bioinformatics 2008 24(23):2790-2791; doi:10.1093/bioinformatics/btn531
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© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

FABSIM: a software for generating FST distributions with various ascertainment biases

Anna Ramírez-Soriano 1 and Francesc Calafell 1,2,*

1IBE, Institute of Evolutionary Biology (UPF-CSIC), CEXS-UPF-PRBB. Doctor Aiguader, 88. 08003 Barcelona, Catalonia, Spain and 2CIBER en Epidemiologia y Salud Pública (CIBEREsp), Barcelona, Spain

*To whom correspondence should be addressed.


  Abstract

Summary: We have developed a software that applies ascertainment bias on simulated DNA sequences and calculates FST on them, so they can be used to generate neutral distributions that are appropriate to test whether the genetic differentiation of a particular gene between populations is compatible with neutral evolution, or, on the contrary, suggests local adaptation by natural selection.

Availability: FABSIM is available from http://www.snpator.com/public/downloads/aRamirez/FABSIM/.

Contact: francesc.calafell{at}upf.edu.

Supplementary information: Supplementary data are available at Bioinformatics online. The data from which figures are built can be dowloaded from http://www.snpator.com/public/downloads/aRamirez/.

Associate Editor: Martin Bishop

Received on September 5, 2008; revised on October 7, 2008; accepted on October 7, 2008

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