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September 10, 2025

The structure of deviations from maximum parsimony for densely-sampled data and applications for clade support estimation

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Authors

WHWilliam Howard-SnyderWDWill DummMBMary Barker

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Overview

This paper develops algorithms to identify tree deviations in densely sampled phylogenetic data, suggesting improvements for clade support estimation.

Key Points

  • Simulated trees commonly deviate locally from maximum parsimony, reflecting independent mutations on sister branches.
  • Understanding tree deviations reveals insights into maximum parsimony in densely sampled viral data sets, like SARS-CoV-2.
  • New algorithms help map the structures of deviations, supporting better estimates for clade supports in phylogenetic reconstruction.
  • Efficient sampling of near-MP trees is achievable using the insights gained from analyzing tree deviations.

Cite This Study

Howard-Snyder et al. (2025) studied this question.

synapsesocial.com/papers/68c1b19354b1d3bfb60e8a60https://doi.org/10.1109/tcbbio.2025.3595782
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