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SPREAD 4: online visualisation of pathogen phylogeographic reconstructions
Kanika D Nahata1, Filip Bielejec2, Juan Monetta3
1Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Herestraat 49, Leuven 3000, Belgium.
Virus Evolution
|November 3, 2022
Summary
SPREAD 4 is a new web application for visualizing pathogen spread using genomic data. It helps researchers create publication-ready figures of spatio-temporal reconstructions from Bayesian phylogeographic inference.
Area of Science:
- Genomics
- Epidemiology
- Computational Biology
Background:
- Phylogeographic analyses are crucial for understanding pathogen spread using genomic data.
- Visualizing spatio-temporal reconstructions is essential for interpreting these analyses.
Purpose of the Study:
- To introduce SPREAD 4, a web-based application for visualizing pathogen dispersal.
- To provide a user-friendly tool for generating publication-ready figures from phylogeographic inference.
Main Methods:
- Utilizes Bayesian phylogeographic inference from BEAST.
- Visualizes results on a geographic map with zoom-and-filter functionality.
- Supports phylogenies with discrete and continuous location annotation.
Main Results:
- SPREAD 4 offers smooth animation of pathogen dispersal over time.
- Account-based storage and unique web addresses facilitate easy sharing of visualizations.
- The application is intuitive and generates customized, publication-ready figures.
Conclusions:
- SPREAD 4 enhances the visualization of pathogen spread from genomic data.
- It provides a valuable tool for researchers in phylogeography and epidemiology.
- The application promotes accessible sharing and interpretation of complex spatio-temporal data.
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