Coalescent simulation in continuous space Journal Article


Author(s): Kelleher, Jerome; Barton, Nicholas H; Etheridge, Alison M
Article Title: Coalescent simulation in continuous space
Affiliation IST Austria
Abstract: 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.
Keywords: simulation; Population Genetics; Coalescent
Journal Title: Bioinformatics
Volume: 29
Issue 7
ISSN: 1367-4803
Publisher: Oxford University Press  
Date Published: 2013-04-07
Start Page: 955
End Page: 956
Sponsor: N.H.B. is supported by European Research Council grant 250152.
URL:
DOI: 10.1093/bioinformatics/btt067
Open access: yes (repository)
IST Austria Authors
  1. Nick Barton
    252 Barton