Nextflow Registry | nf-core/humid@0.0.0-0c7146d

nf-core/humid @ 0.0.0-0c7146d

HUMID is a tool to quickly and easily remove duplicate reads from FastQ files, with or without UMIs.

umi fastq deduplication hamming-distance clustering

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @Joon-Klaps

Maintainers: @Joon-Klaps

HUMID is a tool to quickly and easily remove duplicate reads from FastQ files, with or without UMIs.

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

include { HUMID } from 'nf-core/humid'

MIT License

Process

`Name`	`HUMID`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`reads` file	Fastq file(s) to deduplicate `*.{fastq,fq,fastq.gz,fq.gz}`

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`umi_file` file	UMI file

Output 5 channels

#1 log tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`${prefix}.log` file	Log file of humid, containing progress and errors `*.log`

#2 dedup tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`_dedup.fastq.gz` file	Deduplicated Fastq file(s) `*.{fastq,fq,fastq.gz,fq.gz}`

#3 stats tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`${prefix}` directory	Directory containing statistics file, use for multiqc. `${prefix}/`

#4 versions

`versions.yml` file	File containing software versions `versions.yml`

#5 annotated tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`_annotated.fastq.gz` file	Annotated Fastq file(s) `*.{fastq,fq,fastq.gz,fq.gz}`

Tool	Description	Homepage
humid	HUMID -- High-performance UMI Deduplicator	https://github.com/jfjlaros/HUMID

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:48:27 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fhumid/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/humid/blobs/sha256:5fae8fb35f9ec96df87630df93f399e15862d83e178c673d761df73515ba39c4
Size	3.4 KB
Checksum	sha256:5fae8fb35f9ec96df87630df93f399e15862d83e178c673d761df73515ba39c4
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:48:27 (UTC)		1	3.4 KB	-