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SIMCOAL 2.0: a program to simulate genomic diversity over large recombining regions in a subdivided population with a complex history

Laval, Guillaume ; Excoffier, Laurent

In: Bioinformatics, 2004, vol. 20, no. 15, p. 2485-2487

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    Titre
    • SIMCOAL 2.0: a program to simulate genomic diversity over large recombining regions in a subdivided population with a complex history
    Auteur
    • Laval, Guillaume. Computational and Molecular Population Genetics, Zoological Institute, University of Bern, Baltzerstrasse 6, Bern CH-3012, Switzerland
    • Excoffier, Laurent. Computational and Molecular Population Genetics, Zoological Institute, University of Bern, Baltzerstrasse 6, Bern CH-3012, Switzerland
    Type de document
    • Postprint
    Classification
    • Informatique
    Identifiant OAI-PMH
    • oai:doc.rero.ch:299289
    Summary
    Summary: We present an extension of the program SIMCOAL, which allows for simulation of the genomic diversity of samples drawn from a set of populations with arbitrary patterns of migrations and complex demographic histories, including bottlenecks and various modes of demographic expansion. The main additions to the previous version include the possibility of arbitrary and heterogeneous recombination rates between adjacent loci and multiple coalescent events per generation, allowing for the simulation of very large samples and recombining genomic regions, together with the simulation of single nucleotide polymorphism data with frequency ascertainment bias. Availability: http://cmpg.unibe.ch/software/simcoal2/ Supplementary information: http://cmpg.unibe.ch/software/simcoal2