Links between maximum likelihood and maximum parsimony under a simple model of site substitution

DOI10.1007/BF02459467zbMATH Open0933.62118OpenAlexW4244797807WikidataQ29393239 ScholiaQ29393239MaRDI QIDQ1363041FDOQ1363041

Chris Tuffley, Mike Steel

Publication date: 29 March 2000

Published in: Bulletin of Mathematical Biology (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1007/bf02459467

Recommendations

• Revisiting an equivalence between maximum parsimony and maximum likelihood methods in phylogenetics
• Composite likelihood modeling of neighboring site correlations of DNA sequence substitution rates
• On the quirks of maximum parsimony and likelihood on phylogenetic networks
• Estimating phylogenetic trees from pairwise likelihoods and posterior probabilities of substitution counts
• A subdivision approach to maximum parsimony
• Maximum likelihood estimation of population divergence times and population phylogenies under the infinite sites model
• Maximum Likelihood for Genome Phylogeny on Gene Content
• Phylogenetic Inference: Linear Invariants and Maximum Likelihood
• Maximum parsimony on subsets of taxa

zbMATH Keywords

maximum likelihoodmaximum parsimonyphylogenetic trees

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) Problems related to evolution (92D15)

Cites Work

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• Taxonomy with confidence
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• On weighted multiway cuts in trees
• Distributions on bicoloured binary trees arising from the principle of parsimony
• Inconsistency of evolutionary tree topology reconstruction methods when substitution rates vary across characters
• Counting bichromatic evolutionary trees
• Decompositions of leaf-colored binary trees

Cited In (23)

• Analytic Solutions for Three-Taxon MLMC Trees with Variable Rates Across Sites
• Ancestral state reconstruction with large numbers of sequences and edge-length estimation
• Revisiting an equivalence between maximum parsimony and maximum likelihood methods in phylogenetics
• On the quirks of maximum parsimony and likelihood on phylogenetic networks
• Fast computation of maximum likelihood trees by numerical approximation of amino acid replacement probabilities
• Finding a most parsimonious or likely tree in a network with respect to an alignment
• Quantifying the accuracy of ancestral state prediction in a phylogenetic tree under maximum parsimony
• Inferring ancestral sequences in taxon-rich phylogenies
• Large-Scale Multiple Sequence Alignment and Phylogeny Estimation
• The rise of statistical phylogenetics
• Title not available (Why is that?)
• On the accuracy of ancestral sequence reconstruction for ultrametric trees with parsimony
• Two further links between MP and ML under the Poisson model.
• Non-hereditary maximum parsimony trees
• Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent
• Statistics for phylogenetic trees
• MULTIPLE COMPARISONS OF LOG-LIKELIHOODS AND COMBINING NONNESTED MODELS WITH APPLICATIONS TO PHYLOGENETIC TREE SELECTION
• Maximum parsimony on subsets of taxa
• Sufficient condition for root reconstruction by parsimony on binary trees with general weights
• Sufficient conditions for two tree reconstruction techniques to succeed on sufficiently long sequences
• On the convergence of the maximum likelihood estimator for the transition rate under a 2-state symmetric model
• Most parsimonious likelihood exhibits multiple optima for compatible characters
• Comparing the likelihood functions of phylogenetic trees

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