Nextflow Registry | nf-core/rgi/bwt@0.0.0-0c7146d

nf-core/rgi/bwt @ 0.0.0-0c7146d

Predict antibiotic resistance from protein or nucleotide data

bacteria fasta antibiotic resistance

Latest version: 0.0.0-0c7146d

Total downloads: 1

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	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:07:51 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Frgi%2Fbwt/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/rgi/bwt/blobs/sha256:7867db2dd486dcfba83ee2cb510835729a1146672cc1022d187ea2463da71358
Size	3.6 KB
Checksum	sha256:7867db2dd486dcfba83ee2cb510835729a1146672cc1022d187ea2463da71358
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:07:51 (UTC)		1	3.6 KB	-