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Microreact: visualizing and sharing data for genomic epidemiology and phylogeography.

Silvia Argimón1, Khalil Abudahab1, Richard J E Goater1

  • 11​The Centre for Genomic Pathogen Surveillance, Wellcome Genome Campus, Hinxton CB10 1SA, UK.

Microbial Genomics
|March 29, 2017
PubMed
Summary
This summary is machine-generated.

Microreact is a web application for visualizing microbial genomics data, including trees and associated metadata. It offers interactive exploration and sharing of complex datasets for researchers and epidemiologists.

Keywords:
Open dataphylogenomicsphylogeographypopulation genomicstrees

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Area of Science:

  • Microbial genomics
  • Bioinformatics
  • Data visualization

Background:

  • Complex datasets in microbial genomics require effective visualization for interpretation.
  • Current static images in publications inadequately represent the richness of genomic data.
  • There is a need for user-friendly, interactive software for population genomic data analysis.

Purpose of the Study:

  • To present Microreact, a web application for visualizing microbial genomic datasets.
  • To provide a user-friendly platform for interactive querying and exploration of trees, geographical, temporal, and metadata.
  • To facilitate hypothesis generation and exploration of microbial population dynamics.

Main Methods:

  • Developed Microreact, a web application for data visualization.
  • Integrated visualization of trees, maps, timelines, and tables.
  • Enabled data upload via web browser or external links (e.g., Google Drive/Dropbox, API).

Main Results:

  • Microreact allows interactive querying of combined genomic and metadata.
  • Visualizations can be shared via permanent web links or embedded in publications.
  • The application serves as an endpoint for bioinformatic pipelines generating trees.

Conclusions:

  • Microreact provides a simple yet powerful method for visualizing and exploring microbial population genomic data.
  • The tool aids research, discovery, and open data sharing among diverse users.
  • Interactive visualization enhances the interpretation of complex microbial genomic datasets.