Improving the Accuracy of Demographic and Molecular Clock Model Comparison While Accommodating Phylogenetic Uncertainty

Baele, Guy; Lemey, Philippe; Bedford, Trevor; Rambaut, Andrew; Suchard, Marc A.; Alekseyenko, Alexander V.

doi:10.1093/molbev/mss084

articleMolecular Biology and EvolutionMar 7, 2012BRONZE OA

Improving the Accuracy of Demographic and Molecular Clock Model Comparison While Accommodating Phylogenetic Uncertainty

GBGuy Baele PLPhilippe Lemey TBTrevor Bedford ARAndrew Rambaut MAMarc A. Suchard

KU Leuven · University of Edinburgh · +2 more institutions

PubMed

Indexed incrossrefdoajpubmed

Abstract

Recent developments in marginal likelihood estimation for model selection in the field of Bayesian phylogenetics and molecular evolution have emphasized the poor performance of the harmonic mean estimator (HME). Although these studies have shown the merits of new approaches applied to standard normally distributed examples and small real-world data sets, not much is currently known concerning the performance and computational issues of these methods when fitting complex evolutionary and population genetic models to empirical real-world data sets. Further, these approaches have not yet seen widespread application in the field due to the lack of implementations of these computationally demanding techniques in…

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Topics

Keywords

Akaike information criterion
Bayesian information criterion
Markov chain Monte Carlo
Estimator
Sampling (signal processing)
Marginal likelihood
Bayesian probability
Computer science

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