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Bioinformatics. 2016 Apr 1;32(7):1103-5. doi: 10.1093/bioinformatics/btv700. Epub 2015 Nov 28.

Admix'em: a flexible framework for forward-time simulations of hybrid populations with selection and mate choice.

Author information

1
Department of Biology, Texas A&M University, College Station, TX 77843, USA, Centro De Investigaciones Científicas De Las Huastecas "Aguazarca", Calnali, Mexico and Max Planck Institute for the Biology of Aging, Cologne, Germany.
2
Centro De Investigaciones Científicas De Las Huastecas "Aguazarca", Calnali, Mexico and.
3
Department of Biology, Texas A&M University, College Station, TX 77843, USA, Centro De Investigaciones Científicas De Las Huastecas "Aguazarca", Calnali, Mexico and.

Abstract

We introduce a new forward-time simulator, Admix'em, that allows for rapid and realistic simulations of admixed populations with selection. Complex selection can be achieved through user-defined fitness and mating-preference probability functions. Users can specify realistic genomic landscapes and model neutral SNPs in addition to sites under selection. Admix'em is designed to simulate selection in admixed populations but can also be used as a general population simulator. Usage and examples are in the supplement.

AVAILABILITY AND IMPLEMENTATION:

C ++ and OpenMP, supports 64-bit Linux/Unix-like platforms. https://github.com/melop/admixem

CONTACT:

rcui@age.mpg.de

SUPPLEMENTARY INFORMATION:

Supplementary data are available at Bioinformatics online.

PMID:
26615212
DOI:
10.1093/bioinformatics/btv700
[Indexed for MEDLINE]

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