Model selection and model averaging in phylogenetics: advantages of akaike information criterion and bayesian approaches over likelihood ratio tests (Q24286948)

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English	Model selection and model averaging in phylogenetics: advantages of akaike information criterion and bayesian approaches over likelihood ratio tests	scientific article

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Model selection and model averaging in phylogenetics: advantages of akaike information criterion and bayesian approaches over likelihood ratio tests (English)

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Akaike information criterion

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Thomas R. Buckley

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publication date

October 2004

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Systematic Biology

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53

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5

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793-808

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A new look at the statistical model identification

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Effects of Models of Rate Evolution on Estimation of Divergence Dates with Special Reference to the Metazoan 18S Ribosomal RNA Phylogeny

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Bayesian model adequacy and choice in phylogenetics.

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Science and Statistics

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Cross-Validation Methods

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Topological bias and inconsistency of maximum likelihood using wrong models.

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Model misspecification and probabilistic tests of topology: evidence from empirical data sets

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Combined data, Bayesian phylogenetics, and the origin of the New Zealand cicada genera

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The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support.

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Evolutionary trees from DNA sequences: A maximum likelihood approach

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Counterexamples to parsimony and BIC

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Key Concepts in Model Selection: Performance and Generalizability.

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A graph theoretic approach to the development of minimal phylogenetic trees

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Evolution of the mitochondrial cytochrome oxidase II gene in collembola

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Statistical tests of models of DNA substitution

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Phylogenetic information and experimental design in molecular systematics.

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Reversible jump Markov chain Monte Carlo computation and Bayesian model determination

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Mitochondrial DNA evolution in primates: transition rate has been extremely low in the lemur.

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Phylogeny and molecular evolution in primates

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Dating of the human-ape splitting by a molecular clock of mitochondrial DNA

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Monte Carlo sampling methods using Markov chains and their applications

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A sharper Bonferroni procedure for multiple tests of significance

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21 January 2018

Phylogeny estimation: traditional and Bayesian approaches

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PHYLOGENY ESTIMATION AND HYPOTHESIS TESTING USING MAXIMUM LIKELIHOOD

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21 January 2018

Geographic origin of human mitochondrial DNA: accommodating phylogenetic uncertainty and model comparison

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21 January 2018

Bayesian phylogenetic model selection using reversible jump Markov chain Monte Carlo.

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Potential applications and pitfalls of Bayesian inference of phylogeny

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21 January 2018

A Bayesian framework for the analysis of cospeciation.

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21 January 2018

Bayesian inference of phylogeny and its impact on evolutionary biology

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Regression and time series model selection in small samples

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Model selection in ecology and evolution

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Different models, different trees: the geographic origin of PTLV-I.

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Simplicity, Scientific Inference and Econometric Modelling

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A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences

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Estimation of evolutionary distances between homologous nucleotide sequences

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Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea

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On Information and Sufficiency

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A STATISTICAL PARADOX

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Bayesian phylogenetic inference via Markov chain Monte Carlo methods.

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Equation of State Calculations by Fast Computing Machines

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Performance-based selection of likelihood models for phylogeny estimation

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Bayesian phylogenetic analysis of combined data

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Appropriate likelihood ratio tests and marginal distributions for evolutionary tree models with constraints on parameters.

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The effect of branch length variation on the selection of models of molecular evolution.

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Using MODELTEST and PAUP* to select a model of nucleotide substitution

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MODELTEST: testing the model of DNA substitution

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Selecting the Best-Fit Model of Nucleotide Substitution

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Simple (Wrong) Models for Complex Trees: A Case from Retroviridae

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Combining multiple data sets in a likelihood analysis: which models are the best?

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Tests of applicability of several substitution models for DNA sequence data

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Estimating the Dimension of a Model

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Lindley's Paradox

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Instrumentalism, Parsimony, and the Akaike Framework

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Testing the hypothesis of common ancestry.

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Parsimony, likelihood, and the role of models in molecular phylogenetics.

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Inferring confidence sets of possibly misspecified gene trees.

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Hierarchical Phylogenetic Models for Analyzing Multipartite Sequence Data

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Bayesian selection of continuous-time Markov chain evolutionary models

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Testing a molecular clock without an outgroup: derivations of induced priors on branch-length restrictions in a Bayesian framework

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Further analysts of the data by akaike' s information criterion and the finite corrections

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Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics

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Base compositional bias and phylogenetic analyses: a test of the "flying DNA" hypothesis

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Bayesian Model Selection and Model Averaging

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Among-site rate variation and its impact on phylogenetic analyses

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Maximum-Likelihood Models for Combined Analyses of Multiple Sequence Data

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Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo Method

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Performance of likelihood ratio tests of evolutionary hypotheses under inadequate substitution models.

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Estimation of evolutionary distances between nucleotide sequences.

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An Introduction to Model Selection.

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Statistical tests of gamma-distributed rate heterogeneity in models of sequence evolution in phylogenetics

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Experiences in elicitation [Read before The Royal Statistical Society at a meeting on 'Elicitation' on Wednesday, April 16th, 1997, the President, Professor A. F. M. Smith in the Chair]

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Markov Chasin Monte Carlo Algorithms for the Bayesian Analysis of Phylogenetic Trees

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Bayesian Theory

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