Nextflow Registry | nf-core/rseqc/readduplication@0.0.0-6c4ed3a

nf-core/rseqc/readduplication @ 0.0.0-6c4ed3a

Calculate read duplication rate

rnaseq duplication sequence-based mapping-based

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @drpatelh @kevinmenden @rhassaine

Maintainers: @drpatelh @kevinmenden @rhassaine

Calculate read duplication rate

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

include { RSEQC_READDUPLICATION } from 'nf-core/rseqc/readduplication'

MIT License

Process

`Name`	`RSEQC_READDUPLICATION`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bam` file	the alignment in bam format `*.{bam}`
`bai` file	BAM index file `*.{bai}`

Output 5 channels

#1 pdf tuple

`meta` file	Read duplication rate determined from mapping position of read `*seq.DupRate.xls`
`*.pdf` file	plot of duplication rate `*.pdf`

#2 pos_xls tuple

`meta` file	Read duplication rate determined from mapping position of read `*seq.DupRate.xls`
`*pos.DupRate.xls` file	Read duplication rate determined from sequence of read `*pos.DupRate.xls`

#3 rscript tuple

`meta` file	Read duplication rate determined from mapping position of read `*seq.DupRate.xls`
`*.r` file	script to reproduce the plot `*.R`

#4 seq_xls tuple

`meta` file	Read duplication rate determined from mapping position of read `*seq.DupRate.xls`
`*seq.DupRate.xls` file	Read duplication rate determined from mapping position of read `*seq.DupRate.xls`

#5 versions_rseqc tuple

`${task.process}` string	The process the versions were collected from
`rseqc` string	The tool name
`read_duplication.py --version \| sed "s/read_duplication.py //"` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
rseqc	RSeQC package provides a number of useful modules that can comprehensively evaluate high throughput sequence data especially RNA-seq data.	http://rseqc.sourceforge.net/

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:41:18 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Frseqc%2Freadduplication/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/rseqc/readduplication/blobs/sha256:fbc6e8802965a7ae2cfc17c8772a47efdb4783ea3c6ce050bc58b479bf8c5d76
Size	2.8 KB
Checksum	sha256:fbc6e8802965a7ae2cfc17c8772a47efdb4783ea3c6ce050bc58b479bf8c5d76
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:41:18 (UTC)		3	2.8 KB
0.0.0-0c7146d	08 Apr 2026 19:32:15 (UTC)		3	2.8 KB