Efficient Coalescent Simulation and Genealogical Analysis for Large Sample Sizes (original) (raw)
Fig 3
Comparison of the average running time over 100 replicates for various coalescent simulators with varying sequence length and sample size.
msms [34] is the most efficient published simulator based on Hudson’s algorithm that can output genealogies. MaCS [14] is a popular SMC based simulator, and scrm [16] is the most efficient sequential simulator currently available. Both MaCS and scrm were run in SMC′ mode. Two results are shown for msprime; one outputting Newick trees and another outputting the native HDF5 based format.