Results 1 to 10 of about 486,413 (227)
Rearrangement operations on unrooted phylogenetic networks [PDF]
Theory and Applications of Graphs, 2019 Rearrangement operations transform a phylogenetic tree into another one and hence induce a metric on the space of phylogenetic trees. Popular operations for unrooted phylogenetic trees are NNI (nearest neighbour interchange), SPR (subtree prune and ...
Remie Janssen, Jonathan Klawitter
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Uncertainty in phylogenetic tree estimates [PDF]
Journal of Computational and Graphical Statistics, 2017 Estimating phylogenetic trees is an important problem in evolutionary biology, environmental policy and medicine. Although trees are estimated, their uncertainties are discarded by mathematicians working in tree space.
Bell, Rayna C., Willis, Amy D.
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On the number of vertices of each rank in phylogenetic trees and their generalizations [PDF]
Discrete Mathematics & Theoretical Computer Science, 2016 We find surprisingly simple formulas for the limiting probability that the rank of a randomly selected vertex in a randomly selected phylogenetic tree or generalized phylogenetic tree is a given integer.
Miklós Bóna
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Folding and unfolding phylogenetic trees and networks [PDF]
arXiv, 2015 Phylogenetic networks are rooted, labelled directed acyclic graphs which are commonly used to represent reticulate evolution. There is a close relationship between phylogenetic networks and multi-labelled trees (MUL-trees). Indeed, any phylogenetic network $N$ can be 'unfolded' to obtain a MUL-tree $U(N)$ and, conversely, a MUL-tree $T$ can in certain ...
C Semple +17 more
arxiv +4 more sources
The space of ultrametric phylogenetic trees [PDF]
Journal of Theoretical Biology, 2016 The reliability of a phylogenetic inference method from genomic sequence data is ensured by its statistical consistency. Bayesian inference methods produce a sample of phylogenetic trees from the posterior distribution given sequence data.
Drummond, Alexei J., Gavryushkin, Alex
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Data on the solution and processing time reached when constructing a phylogenetic tree using a quantum-inspired computer [PDF]
Data in Brief, 2023 Phylogenetic trees provide insight into the evolutionary trajectories of species and molecules. However, because (2n-5)! Phylogenetic trees can be constructed from a dataset containing n sequences, but this method of phylogenetic tree construction is not
Wataru Onodera +4 more
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The Identifiability of Tree Topology for Phylogenetic Models, Including Covarion and Mixture Models [PDF]
, 2006 For a model of molecular evolution to be useful for phylogenetic inference, the topology of evolutionary trees must be identifiable. That is, from a joint distribution the model predicts, it must be possible to recover the tree parameter.
Elizabeth S. Allman, John A. Rhodes
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On the Matrix Condition of Phylogenetic Tree. [PDF]
Evol Bioinform Online, 2020 Phylogenetic comparative analyses use trees of evolutionary relationships between species to understand their evolution and ecology. A phylogenetic tree of n taxa can be algebraically transformed into an n by n squared symmetric phylogenetic covariance matrix C where each element [Formula: see text] in C represents the affinity between extant species ...
Jhwueng DC, O'Meara BC.
europepmc +6 more sources
Characterization of a Branch of the Phylogenetic Tree [PDF]
Journal of Theoretical Biology, 2005 We use a combination of analytic models and computer simulations to gain insight into the dynamics of evolution. Our results suggest that certain interesting phenomena should eventually emerge from the fossil record. For example, there should be a ``tortoise and hare effect'': Those genera with the smallest species death rate are likely to survive much
Stuart Samuel, Gezhi Weng
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Locating a tree in a phylogenetic network [PDF]
arXiv, 2010 Phylogenetic trees and networks are leaf-labelled graphs that are used to describe evolutionary histories of species. The Tree Containment problem asks whether a given phylogenetic tree is embedded in a given phylogenetic network. Given a phylogenetic network and a cluster of species, the Cluster Containment problem asks whether the given cluster is a ...
Charles Semple +2 more
arxiv +6 more sources