Results 1 to 10 of about 1,369,061 (328)
Phylogenetic diversity and biodiversity indices on phylogenetic networks [PDF]
Mathematical Biosciences, 2018 In biodiversity conservation it is often necessary to prioritize the species to conserve. Existing approaches to prioritization, e.g. the Fair Proportion Index and the Shapley Value, are based on phylogenetic trees and rank species according to their contribution to overall phylogenetic diversity.
Kristina Wicke, Mareike Fischer
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A Format for Phylogenetic Placements [PDF]
PLoS ONE, 2012 We have developed a unified format for phylogenetic placements, that is, mappings of environmental sequence data (e.g. short reads) into a phylogenetic tree. We are motivated to do so by the growing number of tools for computing and post-processing phylogenetic placements, and the lack of an established standard for storing them.
Frederick A. Matsen +4 more
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Frontiers in Psychology, 2021 In this article we propose a novel method to estimate the frequency distribution of linguistic variables while controlling for statistical non-independence due to shared ancestry. Unlike previous approaches, our technique uses all available data, from language families large and small as well as from isolates, while controlling for different degrees of
Jäger, Gerhard, Wahle, Johannes
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Phylogenetic reconciliation [PDF]
PLOS Computational Biology, 2022 This preprint was submitted to Plos Comp Biol Topic Pages, thus its style and format are intented to fit a wikipedia article.; In phylogenetics, reconciliation is an approach to connect the history of two or more coevolving biological entities. The general idea of reconciliation is that a phylogenetic tree representing the evolution of an entity (e.g ...
Hugo Menet, Vincent Daubin, Eric Tannier
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Journal of Software for Algebra and Geometry, 2021 We introduce the package PhylogeneticTrees for Macaulay2 which allows users to compute phylogenetic invariants for group-based tree models. We provide some background information on phylogenetic algebraic geometry and show how the package PhylogeneticTrees can be used to calculate a generating set for a phylogenetic ideal as well as a lower bound for ...
Elizabeth Gross +8 more
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Microbial Phylogenetic Context Using Phylogenetic Outlines [PDF]
Genome Biology and Evolution, 2021 AbstractMicrobial studies typically involve the sequencing and assembly of draft genomes for individual microbes or whole microbiomes. Given a draft genome, one first task is to determine its phylogenetic context, that is, to place it relative to the set of related reference genomes.
Caner Bagci +3 more
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Phylogenetics: The Theory and Practice of Phylogenetic Systematics. [PDF]
Systematic Zoology, 1982 INTRODUCTION SPECIES AND SPECIATION. SUPRASPECIFIC TAXA. PHYLOGENETIC TREES. CHARACTERS AND RECONSTRUCTION OF PHYLOGENIES. PHYLOGENETIC CLASSIFICATION. TAXONOMIC ALTERNATIVES TO THE PHYLOGENETIC SYSTEM. BIOGEOGRAPHY. SPECIMENS AND CURATION. CHARACTERS AND QUANTITATIVE CHARACTER ANALYSIS. PUBLICATION AND RULES OF NOMENCLATURE.
Donald H. Colless, Edward O. Wiley
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Phylogenetic Comparative Methods on Phylogenetic Networks with Reticulations [PDF]
Systematic Biology, 2017 Abstract The goal of phylogenetic comparative methods (PCMs) is to study the distribution of quantitative traits among related species. The observed traits are often seen as the result of a Brownian Motion (BM) along the branches of a phylogenetic tree. Reticulation events such as hybridization, gene flow or horizontal gene transfer, can
Bastide, Paul +4 more
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Trinets encode tree-child and level-2 phylogenetic networks [PDF]
, 2014 Phylogenetic networks generalize evolutionary trees, and are commonly used to represent evolutionary histories of species that undergo reticulate evolutionary processes such as hybridization, recombination and lateral gene transfer.
A Dress +27 more
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Proceedings of the International Astronomical Union, 2017 AbstractPhylogenetics is a widely used concept in evolutionary biology. It is the reconstruction of evolutionary history by building trees that represent branching patterns and sequences. These trees represent shared history, and it is our contention that this approach can be employed in the analysis of Galactic history.
Paula Jofre, Payel Das
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