Nextflow Registry | nf-core/umitools/group@0.0.0-0c7146d

nf-core/umitools/group @ 0.0.0-0c7146d

Group reads based on their UMI and mapping coordinates

umitools umi deduplication dedup clustering

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @Joon-Klaps

Maintainers: @Joon-Klaps

Group reads based on their UMI and mapping coordinates

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

include { UMITOOLS_GROUP } from 'nf-core/umitools/group'

MIT License

Process

`Name`	`UMITOOLS_GROUP`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bam` file	BAM file containing reads to be deduplicated via UMIs. `*.{bam}`
`bai` file	BAM index files corresponding to the input BAM file. `*.{bai}`

`create_bam` boolean	Whether or not to create a read group tagged BAM file.

`get_group_info` boolean	Whether or not to generate the flatfile describing the read groups, see docs for complete info of all columns

Output 4 channels

#1 bam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.bam` file	a read group tagged BAM file. `${prefix}.{bam}`

#2 log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.log` file	File with logging information `*.{log}`

#3 tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.tsv` file	Flatfile describing the read groups, see docs for complete info of all columns `*.{tsv}`

#4 versions

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

Tool	Description	Homepage
umi_tools	UMI-tools contains tools for dealing with Unique Molecular Identifiers (UMIs)/Random Molecular Tags (RMTs) and single cell RNA-Seq cell barcodes	n/a

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:20:47 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fumitools%2Fgroup/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/umitools/group/blobs/sha256:57182816a9d2e174fb4a00b693acec50bef95c47164f3653248e8f64acb87e6b
Size	3.6 KB
Checksum	sha256:57182816a9d2e174fb4a00b693acec50bef95c47164f3653248e8f64acb87e6b
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:20:47 (UTC)		1	3.6 KB	-