Lie Markov models with purine/pyrimidine symmetry

DOI10.1007/s00285-014-0773-zzbMath1339.60111arXiv1206.1401WikidataQ51094986 ScholiaQ51094986MaRDI QIDQ2257052

Jesús Fernández-Sánchez, Michael D. Woodhams, Jeremy G. Sumner, Peter D. Jarvis

Publication date: 23 February 2015

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

Full work available at URL: https://arxiv.org/abs/1206.1401

zbMATH Keywords

permutation groups; Lie algebras; representation theory; phylogenetics; Lie Markov models

Mathematics Subject Classification ID

62P10: Applications of statistics to biology and medical sciences; meta analysis

92D15: Problems related to evolution

92D20: Protein sequences, DNA sequences

22E60: Lie algebras of Lie groups

52B99: Polytopes and polyhedra

60J27: Continuous-time Markov processes on discrete state spaces

60J28: Applications of continuous-time Markov processes on discrete state spaces

Related Items

MULTIPLICATIVELY CLOSED MARKOV MODELS MUST FORM LIE ALGEBRAS, Quantum channel simulation of phylogenetic branching models, On equal-input and monotone Markov matrices, Systematics and symmetry in molecular phylogenetic modelling: perspectives from physics, Designing weights for quartet-based methods when data are heterogeneous across lineages, Uniformization Stable Markov Models and Their Jordan Algebraic Structure, Matrix group structure and Markov invariants in the strand symmetric phylogenetic substitution model, Lie-Markov models derived from finite semigroups, Incorporating compositional heterogeneity into Lie Markov models for phylogenetic inference, The impracticalities of multiplicatively-closed codon models: a retreat to linear alternatives, Phylosymmetric algebras: mathematical properties of a new tool in phylogenetics, Embeddability and rate identifiability of Kimura 2-parameter matrices, Notes on Markov embedding

Uses Software

• SageMath
• fastDNAml
• MODELTEST

Cites Work

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