This software implements MSMC, a method to infer population size and gene flow from multiple genome sequences.
In short, msmc can infer
- the scaled population size of a single population as a function of time
- the timing and nature of population separations between two populations
from multiple phased haplotypes. When only two haplotypes are given, MSMC is similar to PSMC, and we call it PSMC' because of subtle differences in the method and the underlying model, which allows PSMC' to infer more accurately the recombination rate.
Version on CSC's Servers
To load MSMC:
module load python-env/3.4.1 module load msmcNote that the MSMC module can also be loaded directly. Python is only needed if you wish to use the msmc-tools scripts (bamCaller.py etc)
Inferring human population size and separation history from multiple genome sequences. Stephan Schiffels & Richard Durbin, Nature Genetics 46, 919–925 (2014) doi:10.1038/ng.3015