Bayesian-weighted triplet and quartet methods for species tree inference

DOI10.1007/S11538-021-00918-ZzbMath1470.92221arXiv2010.06063OpenAlexW3184117250WikidataQ113900146 ScholiaQ113900146MaRDI QIDQ2044459

Andrew Richards, Laura S. Kubatko

Publication date: 9 August 2021

Published in: Bulletin of Mathematical Biology (Search for Journal in Brave)

Full work available at URL: https://arxiv.org/abs/2010.06063

zbMATH Keywords

phylogenetic inferencemultispecies coalescentquartet assemblyspecies phylogeny

Mathematics Subject Classification ID

Problems related to evolution (92D15) Taxonomy, cladistics, statistics in mathematical biology (92B10)

Related Items (2)

Site pattern probabilities under the multispecies coalescent and a relaxed molecular clock: theory and applications ⋮ Comparing methods for species tree estimation with gene duplication and loss

Uses Software

• ape
• RAxML
• PAUP*
• Seq-Gen
• phangorn
• BEAST
• ASTRAL-II
• STEM-hy
• FastTree

Cites Work

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• Distribution of branch lengths and phylogenetic diversity under homogeneous speciation models
• Comparison of phylogenetic trees
• The coalescent
• Bootstrap methods: another look at the jackknife
• Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites
• The probabilities of rooted tree-shapes generated by random bifurcation
• Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent

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