ArticleProceedings of the National Academy of Sciences of the United States of America2020
Distance metrics for ranked evolutionary trees.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 27 citations in OpenAlex.
- Generalizing Matrix Representations to Fully Heterochronous Ranked Tree Shapes.Bulletin of mathematical biology · 2026Article
- Article
- Efficient Bayesian Phylogenetics under the Infinite Sites Model.bioRxiv : the preprint server for biology · 2025Article
- Spaces of ranked tree-child networks.Journal of mathematical biology · 2025Article
- Phylo2Vec: A Vector Representation for Binary Trees.Systematic biology · 2025Article
- Statistical summaries of unlabelled evolutionary trees.Biometrika · 2024Article
- Domain-adaptive neural networks improve supervised machine learning based on simulated population genetic data.PLoS genetics · 2023Article
- Machine learning based lineage tree reconstruction improved with knowledge of higher level relationships between cells and genomic barcodes.NAR genomics and bioinformatics · 2023Article
- All galls are divided into three or more parts: recursive enumeration of labeled histories for galled trees.Algorithms for molecular biology : AMB · 2023Article
- The potential of genomics for infectious disease forecasting.Nature microbiology · 2022Review
- 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
- On asymptotic joint distributions of cherries and pitchforks for random phylogenetic trees.Journal of mathematical biology · 2021Article
- Novel metric for hyperbolic phylogenetic tree embeddings.Biology methods & protocols · 2021Article
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Genealogical tree modeling is essential for estimating evolutionary parameters in population genetics and phylogenetics. Recent mathematical results concerning ranked genealogies without leaf labels unlock opportunities in the analysis of evolutionary trees. In particular, comparisons between ranked genealogies facilitate the study of evolutionary processes of different organisms sampled at multiple time periods. We propose metrics on ranked tree shapes and ranked genealogies for lineages isochronously and heterochronously sampled. Our proposed tree metrics make it possible to conduct statistical analyses of ranked tree shapes and timed ranked tree shapes or ranked genealogies. Such analyses allow us to assess differences in tree distributions, quantify estimation uncertainty, and summarize tree distributions. We show the utility of our metrics via simulations and an application in infectious diseases.
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