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Activity Number: 178
Type: Topic Contributed
Date/Time: Monday, August 4, 2008 : 2:00 PM to 3:50 PM
Sponsor: Section on Bayesian Statistical Science
Abstract - #302617
Title: Reexamine Bayes Factor Methods for Bayesian Phylogenetic Inference
Author(s): Ming-Hui Chen and Yu Fan and Paul O. Lewis and Lynn Kuo and Wangang Xie*+
Companies: University of Connecticut and University of Connecticut and University of Connecticut and University of Connecticut and University of Connecticut
Address: , , 06269,
Keywords: Bayesian phylogenetics ; Bayes factor ; Marginal likelihood ; Improved monte carlo methods
Abstract:

Several methods have been advocated to estimate the marginal likelihoods in the Bayes factor computation to infer phylogenies. Brown and Lemmon (2007) advocated the harmonic mean method because of its desirable statistical behavior from their empirically based simulations. Lartillot and Philippe (2006) advocated thermodynamic integration method because of its accuracy. In this paper, we reexamine this controversy. Moreover, we will consider other methods for computing Bayes factors. They include the Laplace approximation, path importance sampling, path bridge sampling (a combination of bridge and path sampling), and warp bridge sampling. Results from both simulation and real data analysis will be reported.

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