ArticlePLoS computational biology2025
Accurate Bayesian phylogenetic point estimation using a tree distribution parameterized by clade probabilities.
Article in PLoS computational biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Article
- Article
- Bayesian credible sets for phylogenetic tree topologies with applications to coverage analysis and cross-model comparison.Molecular biology and evolution · 2026Article
- SciPhy: A Bayesian phylogenetic framework using sequential genetic lineage tracing data.Nature communications · 2026Article
- Navigating the mysterious space of evolutionary histories.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Biological causes and impacts of rugged tree landscapes in phylodynamic inference.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Article
- HIPSTR: highest independent posterior subtree reconstruction in TreeAnnotator X.Bioinformatics (Oxford, England) · 2025Article
- Temporal reconstruction of aMicrobial genomics · 2025Article
- Mechanistic and evolutionary insights into a family of aminoacyl-tRNA deacylases that protects against canavanine toxicity.Nucleic acids research · 2025Article
- Reduced Amino Acid Substitution Matrices Find Traces of Ancient Coding Alphabets in Modern Day Proteins.Molecular biology and evolution · 2025Article
- Evolution is coupled with branching across many granularities of life.Proceedings. Biological sciences · 2025Article
- Finding high posterior density phylogenies by systematically extending a directed acyclic graph.Algorithms for molecular biology : AMB · 2025Article
- HIPSTR: highest independent posterior subtree reconstruction in TreeAnnotator X.bioRxiv : the preprint server for biology · 2024Article
- AARS Online: A collaborative database on the structure, function, and evolution of the aminoacyl-tRNA synthetases.IUBMB life · 2024Article
- Finding high posterior density phylogenies by systematically extending a directed acyclic graph.ArXiv · 2024Article
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Authors and funding
6 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Bayesian phylogenetic analysis with MCMC algorithms generates an estimate of the posterior distribution of phylogenetic trees in the form of a sample of phylogenetic trees and related parameters. The high dimensionality and non-Euclidean nature of tree space complicates summarizing the central tendency and variance of the posterior distribution in tree space. Here we introduce a new tractable tree distribution and associated point estimator that can be constructed from a posterior sample of trees. Through simulation studies we show that this point estimator performs at least as well and often better than standard methods of producing Bayesian posterior summary trees. We also show that the method of summary that performs best depends on the sample size and dimensionality of the problem in non-trivial ways.
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