MaCS is a simulator of the coalescent process that simulates geneologies spatially across chromosomes as a Markovian process. The algorithm is similar to the SMC algorithm (McVean and Cardin, Phil Trans Soc R B 2005) in that the algorithm scales linearly in time with respect to sample size and sequence length. However, it more accurately models the true coalescent, while supporting all demographic scenarios found in the popular program MS (Hudson, Bioinformatics 2002) making this program appropriate for simulating data for structured populations in genome wide association studies.
- C++ compiler
- Boost libraries
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Genome Res. 2009 Jan;19(1):136-42. Epub 2008 Nov 24.
Fast and flexible simulation of DNA sequence data.
Chen GK, Marjoram P, Wall JD.