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Wyniki wyszukiwania dla: PHYLOGENETIC TREE COMPARISON

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Wyniki wyszukiwania dla: PHYLOGENETIC TREE COMPARISON

  • Critical Case Stochastic Phylogenetic Tree Model via the Laplace Transform

    Publikacja

    - Demonstratio Mathematica - Rok 2014

    Birth–and–death models are now a common mathematical tool to describe branching patterns observed in real–world phylogenetic trees. Liggett and Schinazi (2009) is one such example. The authors propose a simple birth–and–death model that is compatible with phylogenetic trees of both influenza and HIV, depending on the birth rate parameter. An interesting special case of this model is the critical case where the birth rate equals the...

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  • Visual TreeCmp : Comprehensive Comparison of Phylogenetic Trees on the Web

    Publikacja

    1. We present Visual TreeCmp—a package of applications for comparing phylogenetic tree sets. 2. Visual TreeCmp includes a graphical web interface allowing the visualization of compared trees and command line application extended by comparison methods recently proposed in the literature. 3. The phylogenetic tree similarity analysis in Visual TreeCmp can be performed using eighteen metrics, of which 11 are dedicated to rooted trees...

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  • Comparing Arbitrary Unrooted Phylogenetic Trees Using Generalized Matching Split Distance

    Publikacja

    In the paper, we describe a method for comparing arbitrary, not necessary fully resolved, unrooted phylogenetic trees. Proposed method is based on finding a minimum weight matching in bipartite graphs and can be regarded as a generalization of well-known Robinson-Foulds distance. We present some properties and advantages of the new distance. We also investigate some properties of presented distance in a common biological problem...

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  • Analyzing sets of phylogenetic trees obtained from bayesian MCMC process using topology metrics

    Publikacja

    - Rok 2009

    The reconstruction of evolutionary trees is one of the primary objectives in phylogenetics. Such a tree represents historical evolutionary relationship between different species or organisms. Tree comparisons are used for multiple purposes, from unveiling the history of species to deciphering evolutionary associations amongorganisms and geographical areas.In the paper, we describe a general method for comparing hylogenetic trees....

  • Generalization of Phylogenetic Matching Metrics with Experimental Tests of Practical Advantages

    Publikacja

    - JOURNAL OF COMPUTATIONAL BIOLOGY - Rok 2023

    The ability to quantify a dissimilarity of different phylogenetic trees is required in various types of phylogenetic studies, for example, such metrics are used to assess the quality of phylogeny construction methods and to define optimization criteria in supertree building algorithms. In this article, starting from the already described concept of matching metrics, we define three new metrics for rooted phylogenetic trees. One...

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