Nextflow Registry | nf-core/umitools/group@0.0.0-6c4ed3a

nf-core/umitools/group @ 0.0.0-6c4ed3a

Group reads based on their UMI and mapping coordinates

umitools umi deduplication dedup clustering

Latest version: 0.0.0-6c4ed3a

Total downloads: 7

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	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:50:41 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fumitools%2Fgroup/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/umitools/group/blobs/sha256:780b593c8c9c3b0e98a54ed6c5d815f38ffe2e08c181bc5846110a39357242a0
Size	3.7 KB
Checksum	sha256:780b593c8c9c3b0e98a54ed6c5d815f38ffe2e08c181bc5846110a39357242a0
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:50:41 (UTC)		3	3.7 KB
0.0.0-0c7146d	08 Apr 2026 19:44:58 (UTC)		4	3.7 KB