Distance metrics for ranked evolutionary trees

Proceedings of the National Academy of Sciences of the United States of America
Jaehee KimJulia A. Palacios

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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Methods Mentioned

BETA
MDS

Related Concepts

In Silico
Biological Evolution
Genetics, Population
Models, Genetic
Genealogical Tree
Phylogeny
Sequence Determinations, DNA
Communicable Diseases
Genetic Markers
Trees (plant)

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