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Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data.

ABSTRACT: Different analytical methods can yield competing interpretations of evolutionary history and, currently, there is no definitive method for phylogenetic reconstruction using morphological data. Parsimony has been the primary method for analysing morphological data, but there has been a resurgence of interest in the likelihood-based Mk-model. Here, we test the performance of the Bayesian implementation of the Mk-model relative to both equal and implied-weight implementations of parsimony. Using simulated morphological data, we demonstrate that the Mk-model outperforms equal-weights parsimony in terms of topological accuracy, and implied-weights performs the most poorly. However, the Mk-model produces phylogenies that have less resolution than parsimony methods. This difference in the accuracy and precision of parsimony and Bayesian approaches to topology estimation needs to be considered when selecting a method for phylogeny reconstruction.

SUBMITTER: O'Reilly JE

PROVIDER: S-EPMC4881353 | biostudies-literature | 2016 Apr

REPOSITORIES: biostudies-literature

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Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data.

O'Reilly Joseph E JE Puttick Mark N MN Parry Luke L Tanner Alastair R AR Tarver James E JE Fleming James J Pisani Davide D Donoghue Philip C J PC

Biology letters 20160401 4

Different analytical methods can yield competing interpretations of evolutionary history and, currently, there is no definitive method for phylogenetic reconstruction using morphological data. Parsimony has been the primary method for analysing morphological data, but there has been a resurgence of interest in the likelihood-based Mk-model. Here, we test the performance of the Bayesian implementation of the Mk-model relative to both equal and implied-weight implementations of parsimony. Using si ...[more]

PMID: 27095266

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Dataset Information

Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data.

Publications

Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data.

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