SNPsim: Coalescent simulation of hotspot recombination

© 2002-2005 David Posada and Carsten Wiuf

Current version is 0.8

SNPsim is a population genetic simulator that generates samples of SNP (Single Nucleotide Polymorphisms) haplotypes and diploid biallelic genotypes. It is based on the coalescent with recombination (Hudson 1983) modified by Wiuf and Posada (2003) to include recombination hotspots. SNPsim also allows for the specification of demographic periods and different mutation models.

Operative systems
Source code and a makefile are provided for compilation in any OS with a C compiler.

Citationç
Posada D and Wiuf C. 2003. Simulating haplotype blocks in the human genome. Bioinformatics 19: 289-290.

SNPsim registration form

Before download this program, I ask users to register. This allows me to inform about bugs and updates in a more efficient way. Indeed, users will be able to unregister at any time, and email addresses will not be used for any purpose other than to inform about this program.

Disclaimer: These programs are free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. These programs are distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

Correspondence about this program should be addressed to David Posada at

This document last modified Saturday May 28, 2011

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