PanExplorer
PanExplorer visualizes and analyzes bacterial pan-genomes to support comparative genomics and evolutionary investigations.
Key Features:
- Visualization: Creates dynamic, interactive visualizations using hotmap.js, MauveViewer, and CircosJS.
- Comprehensive Genomic Analysis: Produces a range of genomic analyses and reports for investigation of bacterial pan-genomes, including gene presence/absence assessments.
Scientific Applications:
- Comparative genomics and evolutionary analysis: Enables investigation of genetic diversity, gene presence/absence variation, and evolutionary relationships among bacterial strains.
- Anaplasmataceae pan-genome case: Applied to generate a pan-genome for 121 Anaplasmataceae strains (30 Ehrlichia, 15 Anaplasma, 68 Wolbachia) to study interspecies and intraspecies variation.
Methodology:
Perl CGI for server-side scripting; integration of JavaScript libraries hotmap.js, MauveViewer, and CircosJS for interactive visualizations.
Topics
Details
- License:
- GPL-3.0
- Cost:
- Free of charge
- Tool Type:
- web application
- Operating Systems:
- Mac, Linux, Windows
- Programming Languages:
- Perl, JavaScript
- Added:
- 10/19/2022
- Last Updated:
- 11/24/2024
Operations
Publications
Dereeper A, Summo M, Meyer DF. PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes. Bioinformatics. 2022;38(18):4412-4414. doi:10.1093/bioinformatics/btac504. PMID:35916725. PMCID:PMC9477528.