Coalescent simulation in continuous space

Kelleher, Jerome and Barton, Nicholas H and Etheridge, Alison M (2013) Coalescent simulation in continuous space. Bioinformatics, 29 (7). pp. 955-956. ISSN 1367-4803

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Coalescent simulation has become an indispensable tool in population genetics and many complex evolutionary scenarios have been incorporated into the basic algorithm. Despite many years of intense interest in spatial structure, however, there are no available methods to simulate the ancestry of a sample of genes that occupy a spatial continuum. This is mainly due to the severe technical problems encountered by the classical model of isolation by distance. A recently introduced model solves these technical problems and provides a solid theoretical basis for the study of populations evolving in continuous space. We present a detailed algorithm to simulate the coalescent process in this model, and provide an efficient implementation of a generalised version of this algorithm as a freely available Python module.

Item Type: Article
DOI: 10.1093/bioinformatics/btt067
Uncontrolled Keywords: Simulation, population genetics, coalescent
Subjects: 500 Science > 570 Life sciences; biology
Research Group: Barton Group
SWORD Depositor: Sword Import User
Depositing User: Sword Import User
Date Deposited: 11 May 2016 11:00
Last Modified: 05 Sep 2017 14:25

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