Maximum likelihood estimation for unrooted 3-leaf trees: an analytic solution for the CFN model

DOI10.1007/S11538-024-01340-XMaRDI QIDQ6601313zbMATH OpenFDO

Authors Max Hill, Sebastien Roch, Jose Israel Rodriguez

Publication date 10 September 2024

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

Copyright license Creative Commons Attribution 4.0 International

zbMATH Keywords

maximum likelihoodphylogeneticsphylogenetic treesCFN modelsemi-algebraic constraintsgroup based models

Mathematics Subject Classification ID

Problems related to evolution (92D15) Protein sequences, DNA sequences (92D20)

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Cites work

• scientific article; zbMATH DE number 1865935 (Why is no real title available?)
• A combinatorial description of the closest tree algorithm for finding evolutionary trees
• A discrete Fourier analysis for evolutionary trees.
• Algebraic statistics
• Analytic solutions for three taxon ML trees with variable rates across sites
• Distance to the stochastic part of phylogenetic varieties
• Elements of Information Theory
• Invariants of some probability models used in phylogenetic inference
• Logarithmic cotangent bundles, Chern‐Mather classes, and the Huh‐Sturmfels involution conjecture
• Maximum likelihood estimation and natural pairwise estimating equations are identical for three sequences and a symmetric 2-state substitution model
• Maximum likelihood estimation of symmetric group-based models via numerical algebraic geometry
• Maximum likelihood estimation of the latent class model through model boundary decomposition
• Solving the likelihood equations
• Spectral analysis of phylogenetic data
• The maximum likelihood degree of mixtures of independence models
• The model-specific Markov embedding problem for symmetric group-based models
• Toric Ideals of Phylogenetic Invariants
• Toric geometry of the Cavender-Farris-Neyman model with a molecular clock

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