Uncertainty in Phylogenetic Tree Estimates

DOI10.1080/10618600.2017.1391697OpenAlexW2963767353MaRDI QIDQ3391085

Amy D. Willis, Rayna Bell

Publication date: 28 March 2022

Published in: Journal of Computational and Graphical Statistics (Search for Journal in Brave)

Full work available at URL: https://arxiv.org/abs/1611.03456

zbMATH Keywords

visualizationdimension reductionstandard errorsevolutionary histories

Mathematics Subject Classification ID

Statistics (62-XX)

Related Items (6)

Distance metrics for ranked evolutionary trees ⋮ Old and new challenges in Hadamard spaces ⋮ Integrating sample similarities into latent class analysis: a tree‐structured shrinkage approach ⋮ Weighted lens depth: Some applications to supervised classification ⋮ Lagged couplings diagnose Markov chain Monte Carlo phylogenetic inference ⋮ Properties for the Fréchet mean in Billera-Holmes-Vogtmann treespace

Uses Software

• lattice
• MASS (R)
• scatterplot3d
• ggplot2
• ape
• XML
• MrBayes
• phangorn
• BEAST
• BEAUti
• gridExtra
• Clustal X
• TOPD/FMTS
• ASTRAL-II
• Partitionfinder
• DensiTree
• Tracer

Cites Work

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• Principal components analysis in the space of phylogenetic trees
• Comparison of phylogenetic trees
• Geometry of the space of phylogenetic trees
• Limiting behaviour of Fréchet means in the space of phylogenetic trees
• Polyhedral computational geometry for averaging metric phylogenetic trees
• Multidimensional scaling by optimizing goodness of fit to a nonmetric hypothesis
• Multidimensional scaling. I: Theory and method
• Computing Medians and Means in Hadamard Spaces
• Statistical Analysis of Financial Data in S-Plus
• Relative Optimality Conditions and Algorithms for Treespace Fréchet Means
• Confidence Sets for Phylogenetic Trees
• Frequentist Accuracy of Bayesian Estimates
• Bootstrap confidence levels for phylogenetic trees

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