Nextflow Registry | nf-core/isoseq3/tag@0.0.0-0c7146d

nf-core/isoseq3/tag @ 0.0.0-0c7146d

Extract UMI and cell barcodes

isoseq tag pacbio UMI cell_barcodes

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @skraettli

Maintainers: @skraettli

Extract UMI and cell barcodes

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

include { ISOSEQ3_TAG } from 'nf-core/isoseq3/tag'

MIT License

Process

`Name`	`ISOSEQ3_TAG`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`bam` file	BAM file, one full-length CCS file generated by lima `*.5p--3p.bam`

`design` string	Barcoding design. Specifies which bases to use as cell/molecular barcodes. `^(?:\d{1,2}[UBGX]-)+T$\|^(?:\d{1,2}[UBGX]-)+T(?:-\d{1,2}[UBGX])+$\|^T(?:-\d{1,2}[UBGX])+$`

Output 3 channels

#1 bam tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1']`
`*.flt.bam` file	BAM file with full-length tagged reads `*.flt.bam`

#2 pbi tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1']`
`*.flt.bam.pbi` file	Pacbio index file of full-length tagged reads `*.flt.bam.pbi`

#3 versions

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

Tool	Description	Homepage
isoseq3	Iso-Seq - Scalable De Novo Isoform Discovery	https://github.com/PacificBiosciences/IsoSeq/tree/master

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:49:35 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fisoseq3%2Ftag/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/isoseq3/tag/blobs/sha256:cc31b8f791bb50ee39467a6a1cd7ae50b5f50f98422060dfed3f4219071138e7
Size	2.5 KB
Checksum	sha256:cc31b8f791bb50ee39467a6a1cd7ae50b5f50f98422060dfed3f4219071138e7
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:49:35 (UTC)		1	2.5 KB	-