CoaSim is a tool for simulating the coalescent process with recombination and geneconversion under various demographic models. It effectively constructs the ancestral recombination graph for a given number of individuals and uses this to simulate samples of SNP, micro-satellite, and other haplotypes/genotypes. The generated sample can afterwards be separated in cases and controls, depending on states of selected individual markers. The tool can accordingly also be used to construct cases and control data sets for association studies.

To cite CoaSim, please use:

CoaSim: A Flexible Environment for Simulating Genetic Data under
Coalescent Models
T. Mailund, M.H. Schierup, C.N.S. Pedersen, P.J.M. Mechlenborg,
J.N. Madsen, and L. Schauser
BMC Bioinformatics 2005, 6:252. doi:10.1186/1471-2105-6-252.

CoaSim is developed in collaboration between Bioinformatics ApS and Bioinformatics Research Center (BiRC) and released under the GNU General Public License.

Please see http://www.daimi.au.dk/~mailund/CoaSim/index.html for more details.