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

nf-core/dupradar @ 0.0.0-0c7146d

Assessment of duplication rates in RNA-Seq datasets

rnaseq duplication genomics

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @pinin4fjords

Maintainers: @pinin4fjords

Assessment of duplication rates in RNA-Seq datasets

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

include { DUPRADAR } from 'nf-core/dupradar'

MIT License

Process

`Name`	`DUPRADAR`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bam` file	BAM/SAM file containing read alignments `*.{bam}`

#2 tuple

`meta2` map	Groovy Map containing reference information e.g. [ id:'human' ]
`gtf` file	Genomic features annotation in GTF or SAF `*.{gtf}`

Output 8 channels

#1 hist tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_expressionHist.pdf` file	PDF expression histogram `*.pdf`

#2 boxplot tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_duprateExpBoxplot.pdf` file	PDF duplication rate ~ total reads per kilobase (RPK) boxplot `*_duprateExpBoxplot.pdf`

#3 multiqc tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_mqc.txt` file	dupRadar files for passing to MultiQC `*_multiqc.txt`

#4 versions

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

#5 dupmatrix tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_dupMatrix.txt` file	Text file containing tags falling on the features described in the GTF file `*_dupMatrix.txt`

#6 scatter2d tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_duprateExpDens.pdf` file	PDF duplication rate against total read count plot `*_duprateExpDens.pdf`

#7 session_info tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.R_sessionInfo.log` file	dump of R SessionInfo `*.log`

#8 intercept_slope tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_intercept_slope.txt` file	Text file containing intercept and slope from dupRadar modelling `*_intercept_slope.txt`

Tool	Description	Homepage
dupradar	Assessment of duplication rates in RNA-Seq datasets	https://bioconductor.org/packages/release/bioc/html/dupRadar.html

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:36:36 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fdupradar/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/dupradar/blobs/sha256:6090704b49f89a721eaa503ae29a2671932f5e07da362d6538226ea0e6246efe
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