Nextflow Registry | nf-core/deeparg/predict@0.0.0-0c7146d

nf-core/deeparg/predict @ 0.0.0-0c7146d

A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @jfy133

Maintainers: @jfy133

A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes

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

include { DEEPARG_PREDICT } from 'nf-core/deeparg/predict'

MIT License

Process

`Name`	`DEEPARG_PREDICT`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`fasta` file	FASTA file containing gene-like sequences `*.{fasta,fa,fna}`
`model` string	Which model to use, depending on input data. Either 'LS' or 'SS' for long or short sequences respectively `LS\|LS`

`db` directory	Path to a directory containing the deepARG pre-built models `*/`

Output 5 channels

#1 arg tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.mapping.ARG` file	Table containing sequences with an ARG-like probability of more than specified thresholds `*.mapping.ARG`

#2 daa tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.align.daa` file	Sequences of ARG-like sequences from DIAMOND alignment `*.align.daa`

#3 daa_tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.align.daa.tsv` file	Alignments scores against ARG-like sequences from DIAMOND alignment `*.align.daa.tsv`

#4 potential_arg tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.mapping.potential.ARG` file	Table containing sequences with an ARG-like probability of less than specified thresholds, and requires manual inspection `*.mapping.potential.ARG`

#5 versions_deeparg tuple

`${task.process}` string	The name of the process
`deeparg` string	The name of the tool
`1.0.4` string	The expression to obtain the version of the tool

Tool	Description	Homepage
deeparg	A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes	https://github.com/gaarangoa/deeparg

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:34:38 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fdeeparg%2Fpredict/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/deeparg/predict/blobs/sha256:37df5b9583f7a7e9822cd1468d6a77d67715ac01be8e0a48c69290f3bae24285
Size	3.3 KB
Checksum	sha256:37df5b9583f7a7e9822cd1468d6a77d67715ac01be8e0a48c69290f3bae24285
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:34:38 (UTC)		1	3.3 KB	-