Chapter title |
Species Tree Estimation from Genome-Wide Data with guenomu.
|
---|---|
Chapter number | 18 |
Book title |
Bioinformatics
|
Published in |
Methods in molecular biology, January 2017
|
DOI | 10.1007/978-1-4939-6622-6_18 |
Pubmed ID | |
Book ISBNs |
978-1-4939-6620-2, 978-1-4939-6622-6
|
Authors |
Leonardo de Oliveira Martins, David Posada |
Editors |
Jonathan M. Keith |
Abstract |
The history of particular genes and that of the species that carry them can be different for a variety of reasons. In particular, gene trees and species trees can differ due to well-known evolutionary processes such as gene duplication and loss, lateral gene transfer, or incomplete lineage sorting. Species tree reconstruction methods have been developed to take this incongruence into account; these can be divided grossly into supertree and supermatrix approaches. Here we introduce a new Bayesian hierarchical model that we have recently developed and implemented in the program guenomu. The new model considers multiple sources of gene tree/species tree disagreement. Guenomu takes as input posterior distributions of unrooted gene tree topologies for multiple gene families, in order to estimate the posterior distribution of rooted species tree topologies. |
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