Nextflow Registry | nf-core/rgi/bwt@0.0.0-6c4ed3a

nf-core/rgi/bwt @ 0.0.0-6c4ed3a

Predict antibiotic resistance from protein or nucleotide data

bacteria fasta antibiotic resistance

Latest version: 0.0.0-6c4ed3a

Total downloads: 3

Source: nf-core/modules

Authors: @vinisalazar

Maintainers: @nickp60 @vinisalazar

Predict antibiotic resistance from protein or nucleotide data

Add the following snippet to your workflow script to include this module.

include { RGI_BWT } from 'nf-core/rgi/bwt'

MIT License

Process

`Name`	`RGI_BWT`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`reads` file	Single-end or paired-end nucleotide sequences in FASTQ or FASTA format `*.{fastq,fastq.gz,fq,fq.gz,fasta,fasta.gz,fa,fa.gz,fna,fna.gz,faa,faa.gz}`

`card` directory	Directory containing the CARD database. This is expected to be the unarchived but otherwise unaltered download folder (see RGI documentation for download instructions). `*/`

`wildcard` directory	Directory containing the WildCARD database (optional). This is expected to be the unarchived but otherwise unaltered download folder (see RGI documentation for download instructions). `*/`

Output 5 channels

#1 tmp tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`temp/` directory	Directory containing various intermediate files `temp/`

#2 tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.txt` file	Tab-delimited file with RGI results `*.{txt}`

#3 json tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.json` file	JSON formatted file with RGI results `*.{json}`

#4 versions_db tuple

`${task.process}` string	The process the versions were collected from
`rgi-database` string	The tool name
`echo \$DB_VERSION` string	The CARD database version string

#5 versions_rgi tuple

`${task.process}` string	The process the versions were collected from
`rgi` string	The tool name
`rgi main --version` string	The version string returned by the command

Tool	Description	Homepage
rgi	This tool provides a preliminary annotation of your DNA sequence(s) based upon the data available in The Comprehensive Antibiotic Resistance Database (CARD). Hits to genes tagged with Antibiotic Resistance ontology terms will be highlighted. As CARD expands to include more pathogens, genomes, plasmids, and ontology terms this tool will grow increasingly powerful in providing first-pass detection of antibiotic resistance associated genes. See license at CARD website.	https://card.mcmaster.ca

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:40:44 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Frgi%2Fbwt/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/rgi/bwt/blobs/sha256:6ffbb8ce2a0865361af35443b37d9eee0a926d50645ddf714afb150ed7e16cfd
Size	3.6 KB
Checksum	sha256:6ffbb8ce2a0865361af35443b37d9eee0a926d50645ddf714afb150ed7e16cfd
Downloads	1

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:40:44 (UTC)		1	3.6 KB
0.0.0-3fc6d40