Consistency of Bayesian inference of resolved phylogenetic trees
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Abstract: Bayesian inference is now a leading technique for reconstructing phylogenetic trees from aligned sequence data. In this short note, we formally show that the maximum posterior tree topology provides a statistically consistent estimate of a fully-resolved evolutionary tree under a wide variety of conditions. This includes the inference of gene trees from aligned sequence data across the entire parameter range of branch lengths, and under general conditions on priors in models where the usual `identifiability' conditions hold. We extend this to the inference of species trees from sequence data, where the gene trees constitute `nuisance parameters', as in the program *BEAST. This note also addresses earlier concerns raised in the literature questioning the extent to which statistical consistency for Bayesian methods might hold in general.
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Cites work
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(14)- Consistency and identifiability of the polymorphism-aware phylogenetic models
- Consistency of a phylogenetic tree maximum likelihood estimator
- Consistency and inconsistency of consensus methods for inferring species trees from gene trees in the presence of ancestral population structure
- Consistency and convergence rate of phylogenetic inference via regularization
- The space of ultrametric phylogenetic trees
- Bayesian support is larger than bootstrap support in phylogenetic inference: a mathematical argument
- Bayesian Hypothesis Testing of Four-Taxon Topologies Using Molecular Sequence Data
- Bayesian selection of misspecified models is overconfident and may cause spurious posterior probabilities for phylogenetic trees
- Large-Scale Multiple Sequence Alignment and Phylogeny Estimation
- Bayesian phylogenetics. Methods, algorithms, and applications
- Bayesian inference in molecular phylogenetics
- Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent
- Asymptotic Guarantees for Bayesian Phylogenetic Tree Reconstruction
- Inferring ancestral sequences in taxon-rich phylogenies
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