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Related Experiment Videos

TreeViewJ: An application for viewing and analyzing phylogenetic trees.

Matthew W Peterson1,2, Marc E Colosimo1

  • 1The MITRE Corporation, 202 Burlington Rd, Bedford, MA, USA.

Source Code for Biology and Medicine
|November 2, 2007
PubMed
Summary
This summary is machine-generated.

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Researchers can now visualize, edit, and analyze phylogenetic trees with TreeViewJ, a new Java tool. This software simplifies creating publication-ready evolutionary relationship images, addressing limitations of existing programs.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Evolutionary Biology

Background:

  • Phylogenetic trees are crucial for visualizing evolutionary relationships.
  • Existing software often has limitations, necessitating the use of multiple tools for tree analysis and image production.

Purpose of the Study:

  • To introduce TreeViewJ, a versatile Java-based software for phylogenetic tree visualization, editing, and analysis.
  • To provide researchers with a unified tool to overcome the limitations of current phylogenetic software.

Main Methods:

  • Development of a Java tool (TreeViewJ) for phylogenetic tree manipulation.
  • Implementation of features for branch highlighting (color, width), node annotation, and timeline mapping of collection dates.
  • Inclusion of sorting functionality based on collection dates.

Related Experiment Videos

Main Results:

  • TreeViewJ enables visualization, editing, and analysis of phylogenetic trees.
  • Users can customize tree appearance by altering branch colors and widths and adding node names.
  • The software supports mapping collection dates onto a timeline and sorting trees accordingly.

Conclusions:

  • TreeViewJ is an open-source tool designed for researchers to visualize, edit, and produce publication-ready phylogenetic tree images.
  • The software is released under a GPL license and is freely available.
  • TreeViewJ aims to streamline the workflow for phylogenetic tree analysis and presentation.