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Incomplete lineage sorting (ILS) is a common source of gene tree incongruencein multilocus analyses. A large number of methods have been developed to inferspecies trees in the presence of ILS. Here we provide a mathematical analysisof several coalescent-based methods. Our analysis is performed on a three-taxonspecies tree and assumes that the gene trees are correctly reconstructed alongwith their branch lengths.

An analytical comparison of coalescent-based multilocus methods: The three-taxon case