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Cosi2: an efficient simulator of exact and approximate coalescent with selection.

Bioinformatics

December 2014

Broad Institute of MIT and Harvard, MA 02142 and Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA.

Motivation: Efficient simulation of population genetic samples under a given demographic model is a prerequisite for many analyses. Coalescent theory provides an efficient framework for such simulations, but simulating longer regions and higher recombination rates remains challenging. Simulators based on a Markovian approximation to the coalescent scale well, but do not support simulation of selection.

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