Ncbi-amrfinderplus and the accompanying database identify acquired antimicrobial resistance genes in bacterial protein and/or assembled nucleotide sequences as well as known resistance-associated point mutations for several taxa.

For more information, please check:


  • 3.10.30

  • 3.10.42

  • 3.11.2


  • amrfinder


You can load the modules by:

module load biocontainers
module load ncbi-amrfinderplus


AMRFinderPlus database has been setup for users. Users can check the database version by amrfinder -V. RCAC will keep updating database for users. If you notice our database is out of date, you can contact us to update the database.

Example job


Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.

To run ncbi-amrfinderplus on our clusters:

#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -n 1
#SBATCH --job-name=ncbi-amrfinderplus
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers ncbi-amrfinderplus

# Protein AMRFinder with no genomic coordinates
amrfinder -p test_prot.fa

# Translated nucleotide AMRFinder (will not use HMMs)
amrfinder -n test_dna.fa

# Protein AMRFinder using GFF to get genomic coordinates and 'plus' genes
amrfinder -p test_prot.fa -g test_prot.gff --plus

# Protein AMRFinder with Escherichia protein point mutations
amrfinder -p test_prot.fa -O Escherichia

# Full AMRFinderPlus search combining results
amrfinder -p test_prot.fa -g test_prot.gff -n test_dna.fa -O Escherichia --plus