A docker image that contains VirulenceFinder, a tool for identifying virulence factors in E. coli, Enterococcus, S. aureus, and Listeria isolates from reads or assemblies
Main tool:
- Main Code Repo: https://bitbucket.org/genomicepidemiology/virulencefinder/src/master/
- VirulenceFinder database: https://bitbucket.org/genomicepidemiology/virulencefinder_db/src/master/
- You may be familiar with the web version of VirulenceFinder: https://cge.food.dtu.dk/services/VirulenceFinder/
Additional tools:
- kma version 1.5.2
Database version: 4ad9c8dd6eb4adedc99c03f46796e5f5c225b004 (after 2.0.1) made on 2025-07-04
python -m virulencefinder -ifq sample_1.fastq.gz sample_2.fastq.gz --extended_output -o outdir