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PastView: a user-friendly interface to explore ancestral scenarios.

François Chevenet1,2, Guillaume Castel3, Emmanuelle Jousselin3

  • 1MIVEGEC, Université de Montpellier, CNRS, IRD, Montpellier, France. francois.chevenet@ird.fr.

BMC Evolutionary Biology
|August 4, 2019
PubMed
Summary

PastView simplifies interpreting evolutionary scenarios by visualizing ancestral character states on phylogenetic trees. This software aids researchers in phylogeography, epidemiology, and ecology by integrating diverse data and methods for clearer evolutionary insights.

Keywords:
Ancestral character statesEvolutionary scenarioPhylogeny

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Area of Science:

  • Evolutionary biology
  • Computational biology
  • Bioinformatics

Background:

  • Phylogenetic trees combined with extrinsic traits are crucial for understanding evolutionary scenarios across various scientific fields.
  • Interpreting ancestral character states from complex data, diverse computational criteria, and numerous evolutionary scenarios presents significant challenges.
  • Existing methods and software for ancestral character state inference require enhanced tools for visualization and interpretation.

Purpose of the Study:

  • To develop a user-friendly interface for computing, visualizing, and interpreting ancestral character states and evolutionary scenarios.
  • To address the complexities in analyzing phylogenetic trees and associated extrinsic traits.
  • To facilitate the exploration of associations between phylogenetic trees and extrinsic traits for clearer evolutionary insights.

Main Methods:

  • Development of PastView, a software with numerical and graphical features.
  • Importing and/or computing ancestral character states from discrete variables.
  • Extracting ancestral scenarios as sequential character state transitions from tree root to leaves.
  • Summarizing views using transition maps and comparative tools to assess method agreement.

Main Results:

  • PastView offers a user-friendly interface for ancestral character state inference and evolutionary scenario exploration.
  • The software provides summarized views like transition maps for easier interpretation.
  • PastView integrates comparative tools to highlight agreements or discrepancies between different inference methods.
  • It facilitates the extraction and viewing of evolutionary scenarios based on phylogenetic trees and ancestral character states.

Conclusions:

  • PastView consolidates existing numerical and graphical methods into a multi-map graphical user interface.
  • The software is specifically designed for computing, searching, and viewing evolutionary scenarios.
  • PastView is publicly available as standalone software, enhancing accessibility for researchers.
  • It effectively aids in deciphering evolutionary scenarios by improving the visualization and interpretation of ancestral character states.