Nextflow Registry | nf-core/comebin/runcomebin@0.0.0-6c4ed3a

nf-core/comebin/runcomebin @ 0.0.0-6c4ed3a

Effective binning of metagenomic contigs using COntrastive Multi-viEw representation learning

metagenomics binning clustering

Latest version: 0.0.0-6c4ed3a

Total downloads: 9

Source: nf-core/modules

Authors: @prototaxites

Maintainers: @prototaxites

Effective binning of metagenomic contigs using COntrastive Multi-viEw representation learning

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

include { COMEBIN_RUNCOMEBIN } from 'nf-core/comebin/runcomebin'

MIT License

Process

`Name`	`COMEBIN_RUNCOMEBIN`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`assembly` file	FASTA file of contigs for binning `*.{fa,fas,fasta,fna,fa.gz,fas.gz,fasta.gz,fna.gz}`
`bam` file	List of sorted bam files of reads mapped to the reference assembly. Not compatible with TSV input. `*.bam`

Output 6 channels

#1 log tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1' ]`
`${prefix}/comebin.log` file	COMEBin log file `*.log`

#2 tsv tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1' ]`
`${prefix}/comebin_res.tsv` file	TSV mapping the output clusters to contigs `*.tsv`

#3 bins tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1' ]`
`${prefix}/comebin_res_bins/*.fa.gz` file	List of FASTA files of binned contigs `*.fna.gz`

#4 embeddings tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1' ]`
`${prefix}/embeddings.tsv` file	TSV describing the embeddings of the contigs `*.tsv`

#5 covembeddings tuple

`meta` map	Groovy Map containing sample information. e.g. `[ id:'sample1' ]`
`${prefix}/covembeddings.tsv` file	TSV describing the embeddings of the contigs `*.tsv`

#6 versions_comebin tuple

`${task.process}` string	The name of the process
`comebin` string	The name of the tool
`run_comebin.sh \| sed '2!d;s/COMEBin version: //'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
comebin	COMEBin allows effective binning of metagenomic contigs using COntrastive Multi-viEw representation learning	https://github.com/ziyewang/COMEBin

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:11:00 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fcomebin%2Fruncomebin/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/comebin/runcomebin/blobs/sha256:9f2efee99739abff6aa5574cbefbac31a8f3961ffb11e4e031103b1ea27b82b3
Size	3.0 KB
Checksum	sha256:9f2efee99739abff6aa5574cbefbac31a8f3961ffb11e4e031103b1ea27b82b3
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:11:00 (UTC)		3	3.0 KB
0.0.0-3fc6d40