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T-REX: reconstructing and visualizing phylogenetic trees and reticulation networks.

V Makarenkov1

  • 1Département de Sciences Biologiques, Universitéde Montréal, CP 6128, succ. Centre-ville, Montréal, Québec H3C 3J7, Canada. makarenv@magellan.umontreal.ca

Bioinformatics (Oxford, England)
|July 13, 2001
PubMed
Summary

T-REX is a freeware application for reconstructing phylogenetic trees and reticulation networks. It offers popular and novel methods for phylogenetic analysis and interactive visualization of results.

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Area of Science:

  • Phylogenetics
  • Computational Biology
  • Bioinformatics

Background:

  • T-REX is a freeware application for phylogenetic tree and reticulogram reconstruction.
  • It provides a suite of popular and novel methods for analyzing distance matrices.

Purpose of the Study:

  • To introduce T-REX, a versatile software for phylogenetic network and tree reconstruction.
  • To highlight its capabilities in handling various data types and offering advanced analytical methods.

Main Methods:

  • Utilizes distance matrices for phylogenetic reconstruction.
  • Incorporates established methods (NJ, UNJ, ADDTREE) and novel approaches.
  • Supports tree reconstruction with weights and from incomplete matrices.
  • Models reticulation networks for evolutionary studies.

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Main Results:

  • Enables the reconstruction of phylogenetic trees and reticulation networks.
  • Offers interactive visualization options including Hierarchical, Radial, and Axial tree drawings.
  • Provides tools for manipulating and analyzing complex evolutionary structures.

Conclusions:

  • T-REX is a comprehensive and user-friendly tool for phylogenetic analysis.
  • Its diverse functionalities cater to both standard and advanced research needs in evolutionary biology.
  • The software facilitates the exploration and understanding of evolutionary relationships and networks.