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Updated: Dec 6, 2025

A Practical Guide to Phylogenetics for Nonexperts

A Practical Guide to Phylogenetics for Nonexperts

Published on: February 5, 2014

DoubleRecViz: a web-based tool for visualizing transcript-gene-species tree reconciliation.

Esaie Kuitche¹, Yanchun Qi¹, Nadia Tahiri²

¹Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada.

Bioinformatics (Oxford, England)

|October 14, 2020

Summary

This summary is machine-generated.

DoubleRecViz is a new web tool for visualizing the joint reconciliation of three phylogenetic trees (transcript, gene, and species). This tool addresses the lack of visualization for complex co-evolutionary analyses involving multiple datasets.

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Area of Science:

Bioinformatics
Computational Biology
Evolutionary Biology

Background:

Phylogenetic tree reconciliation models co-evolution between two sets of taxa.
Existing tools lack visualization for co-evolution involving three taxa sets (e.g., transcript-gene-species).

Purpose of the Study:

To introduce DoubleRecViz, a novel web-based tool for visualizing joint phylogenetic tree reconciliations.
To enable the visualization of co-evolutionary dynamics across transcript, gene, and species levels.

Main Methods:

DoubleRecViz extends the RecPhyloXML model for representing joint transcript-gene and gene-species reconciliations.
The tool is implemented using the Python Dash library for dynamic web visualization.

Main Results:

DoubleRecViz provides a visualization solution for triple phylogenetic tree reconciliations.
The tool facilitates the analysis of complex co-evolutionary relationships.

Conclusions:

DoubleRecViz fills a critical gap in phylogenetic visualization tools.
The tool supports advanced co-evolutionary studies involving multiple biological levels.