Article
The Structure of Deviations From Maximum Parsimony for Densely-Sampled Data and Applications for Clade Support Estimation.
IEEE transactions on computational biology and bioinformatics - 1 Jan 2025
Howard-Snyder William, Dumm Will, Barker Mary, Milanov Ognian, Winston Claris, Rich David H, Suchard Marc A, Matsen Frederick A
Abstract excerpt
How do phylogenetic reconstruction algorithms go astray when they return incorrect trees? This simple question has not been answered in detail, even for maximum parsimony (MP), the simplest phylogenetic criterion. Understanding MP has recently gained relevance in the regime of extremely dense sampling, where each virus sample commonly differs by zero or one mutation from another previously sampled virus. Although...
Read the complete abstract on PubMedTopics
- Phylogeny
- SARS-CoV-2
- Algorithms
- Computational Biology
- COVID-19
- Computer Simulation