Version Compatibility

Reference examples tested with: AMRFinderPlus 3.12+, pandas 2.2+

Before using code patterns, verify installed versions match. If versions differ:

• Python: pip show <package> then help(module.function) to check signatures
• CLI: <tool> --version then <tool> --help to confirm flags

If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.

AMR Detection

"Screen my isolates for antibiotic resistance genes" → Identify antimicrobial resistance determinants in bacterial genomes or metagenomes by searching against curated resistance gene databases.

• CLI: amrfinder -n assembly.fasta --organism Escherichia (AMRFinderPlus)
• CLI: ResFinder, CARD/RGI for alternative database searches

Identify antimicrobial resistance (AMR) genes in bacterial genomes and metagenomes.