Accounting for long-range correlations in genome-wide simulations of large cohorts

We present a Wright-Fisher extension to msprime, and show that it produces more realistic distributions of IBD, LD, and ancestry proportions, while also addressing more subtle biases of the coalescent. Further, these extensions are more computationally efficient than state-of-the-art coalescent simulations when simulating long regions, including whole-genome data. For shorter regions, efficiency can be maintained via a hybrid model which simulates the recent past under the Wright-Fisher model and uses coa lescent simulations in the distant past.
Source: PLoS Genetics - Category: Genetics & Stem Cells Authors: Source Type: research

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