Nextflow Registry | nf-core/metabat2/metabat2@0.0.0-6c4ed3a

nf-core/metabat2/metabat2 @ 0.0.0-6c4ed3a

Metagenome binning of contigs

sort binning depth bam coverage de novo assembly

Latest version: 0.0.0-6c4ed3a

Total downloads: 8

Source: nf-core/modules

Authors: @maxibor @jfy133

Maintainers: @maxibor @jfy133

Metagenome binning of contigs

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

include { METABAT2_METABAT2 } from 'nf-core/metabat2/metabat2'

MIT License

Process

`Name`	`METABAT2_METABAT2`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	Fasta file of the assembled contigs `*.{fa,fas,fasta,fna,fa.gz,fas.gz,fasta.gz,fna.gz}`
`depth` file	Optional text file listing the coverage per contig pre-generated by metabat2_jgisummarizebamcontigdepths `*.txt`

Output 6 channels

#1 fasta tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*[!lowDepth\|tooShort\|unbinned].fa.gz` file	Bins created from assembled contigs in fasta file `*.fa.gz`

#2 lowdepth tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.lowDepth.fa.gz` file	Contigs that did not have sufficient depth for binning `*.lowDepth.fa.gz`

#3 tooshort tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.tooShort.fa.gz` file	Contigs that did not pass length filtering `*.tooShort.fa.gz`

#4 unbinned tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.unbinned.fa.gz` file	Contigs that pass length and depth filtering but could not be binned `*.unbinned.fa.gz`

#5 membership tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.tsv.gz` file	cluster memberships as a matrix format. `*.tsv.gz`

#6 versions_metabat2 tuple

`${task.process}` string	The name of the process
`metabat2` string	The name of the tool
`metabat2 --help 2>&1 \| sed -n "2s/.:$[0-9]\.[0-9]$./\1/p"` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
metabat2	Metagenome binning	https://bitbucket.org/berkeleylab/metabat/src/master/

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:30:08 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fmetabat2%2Fmetabat2/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/metabat2/metabat2/blobs/sha256:2c343abb1a61826f44bd1f147569b504772f46f0d21d6e2fc9d178bb912ebe12
Size	3.4 KB
Checksum	sha256:2c343abb1a61826f44bd1f147569b504772f46f0d21d6e2fc9d178bb912ebe12
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:30:08 (UTC)