Identify antimicrobial resistance in gene or protein sequences
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
fasta:file
Nucleotide or protein sequences in FASTA format
*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz,faa,faa.gz}
db:file
A compressed tarball of the AMRFinderPlus database to query
*.tar.gz
report
${prefix}.tsv:file
AMRFinder+ final report
*.tsv
mutation_report
${prefix}-mutations.tsv:file
Report of organism-specific point-mutations
*-mutations.tsv
versions
versions.yml:file
File containing software versions
versions.yml
tool_version
VER:string
The version of the tool in string format (useful for downstream tools such as hAMRronization)
db_version
DBVER:string
The version of the used database in string format (useful for downstream tools such as hAMRronization)
AMRFinderPlus finds antimicrobial resistance and other genes in protein or nucleotide sequences.
