Limitations of Markov chain Monte Carlo algorithms for Bayesian inference of phylogeny

DOI10.1214/105051600000000538zbMath1121.60078arXivq-bio/0505002OpenAlexW1963972906MaRDI QIDQ997424

Eric Vigoda, Elchanan Mossel

Publication date: 6 August 2007

Published in: The Annals of Applied Probability (Search for Journal in Brave)

Full work available at URL: https://arxiv.org/abs/q-bio/0505002

zbMATH Keywords

Markov chain Monte Carlophylogenytree space

Mathematics Subject Classification ID

Problems related to evolution (92D15) Markov chains (discrete-time Markov processes on discrete state spaces) (60J10)

Related Items (8)

An adjacent-swap Markov chain on coalescent trees ⋮ Ricci-Ollivier curvature of the rooted phylogenetic subtree-prune-regraft graph ⋮ Lagged couplings diagnose Markov chain Monte Carlo phylogenetic inference ⋮ Parallel hierarchical sampling: a general-purpose interacting Markov chains Monte Carlo algorithm ⋮ Convergence rate of Markov chain methods for genomic motif discovery ⋮ Experiments with the site frequency spectrum ⋮ The combinatorics of discrete time-trees: theory and open problems ⋮ MCMC for Imbalanced Categorical Data

Uses Software

• MrBayes

Cites Work

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• Taxonomy with confidence
• Random walks on trees and matchings
• Tropical convexity
• On Counting Independent Sets in Sparse Graphs
• Biological Sequence Analysis
• The tropical Grassmannian

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