Screen assemblies for antimicrobial resistance against multiple databases
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
assembly:file
FASTA, GenBank or EMBL formatted file
*.{fa,fasta,fna,fa.gz,fasta.gz,fna.gz,gbk,gbk.gz,embl,embl.gz}
databasedir:directory
Optional location of local copy of database files, possibly with custom databases set up with abricate --setupdb
abricate --setupdb
*/
report
*.txt:file
Tab-delimited report of results
*.{txt}
versions
versions.yml:file
File containing software versions
versions.yml
Mass screening of contigs for antibiotic resistance genes
