ArticleSystematic biology2018
A Metric on Phylogenetic Tree Shapes.
Article in Systematic biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers, 1 of them a synthesis that pooled it.
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Who cites it
29 citing papers in PubMed, 1 synthesis or guideline pooled it.
- The Limits of the Constant-rate Birth-Death Prior for Phylogenetic Tree Topology Inference.Systematic biology · 2024Pooled it
- A statistical framework for comparing epidemic forests.PLoS computational biology · 2026Article
- DiagnoDating: diagnostics for dated phylogenies in microbial population genetics.Molecular biology and evolution · 2026Article
- A bacterial ecocline in Klebsiella pneumoniae may explain its backboned phylogeny.PLoS biology · 2026Article
- Tree Height and the Asymptotic Mean of the Colijn-Plazzotta Rank of Unlabeled Binary Rooted Trees.Bulletin of mathematical biology · 2025Article
- Tree balance in phylogenetic models.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- How to Validate a Bayesian Evolutionary Model.Systematic biology · 2025Article
- On the importance of assessing topological convergence in Bayesian phylogenetic inference.ArXiv · 2024Article
- Reliable estimation of tree branch lengths using deep neural networks.PLoS computational biology · 2024Article
- A lattice structure for ancestral configurations arising from the relationship between gene trees and species trees.Discrete applied mathematics (Amsterdam, Netherlands : 1988) · 2024Article
- On the importance of assessing topological convergence in Bayesian phylogenetic inference.Virus evolution · 2024Article
- On the complexity of non-binary tree reconciliation with endosymbiotic gene transfer.Algorithms for molecular biology : AMB · 2023Article
- Article
- Deep clustering of bacterial tree images.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Article
- Robust Analysis of Phylogenetic Tree Space.Systematic biology · 2022Article
- Deep learning from phylogenies to uncover the epidemiological dynamics of outbreaks.Nature communications · 2022Article
- Statistical Challenges in Tracking the Evolution of SARS-CoV-2.Statistical science : a review journal of the Institute of Mathematical Statistics · 2022Article
- Article
- Of Traits and Trees: Probabilistic Distances under Continuous Trait Models for Dissecting the Interplay among Phylogeny, Model, and Data.Systematic biology · 2021Article
- On the Colijn-Plazzotta numbering scheme for unlabeled binary rooted trees.Discrete applied mathematics (Amsterdam, Netherlands : 1988) · 2021Article
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The shapes of evolutionary trees are influenced by the nature of the evolutionary process but comparisons of trees from different processes are hindered by the challenge of completely describing tree shape. We present a full characterization of the shapes of rooted branching trees in a form that lends itself to natural tree comparisons. We use this characterization to define a metric, in the sense of a true distance function, on tree shapes. The metric distinguishes trees from random models known to produce different tree shapes. It separates trees derived from tropical versus USA influenza A sequences, which reflect the differing epidemiology of tropical and seasonal flu. We describe several metrics based on the same core characterization, and illustrate how to extend the metric to incorporate trees' branch lengths or other features such as overall imbalance. Our approach allows us to construct addition and multiplication on trees, and to create a convex metric on tree shapes which formally allows computation of average tree shapes.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.