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

nf-core/cnaqc @ 0.0.0-0c7146d

Quality control of copy number data from bulk WGS assays

WGS copy number quality control

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @vvvirgy

Maintainers: @vvvirgy

Quality control of copy number data from bulk WGS assays

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

include { CNAQC } from 'nf-core/cnaqc'

MIT License

Process

`Name`	`CNAQC`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`snv_rds` file	R object with mutation data `*.rds`
`cna_rds` file	R object with copy number data `*.rds`
`tumour_sample` string	string containing sample name

Output 6 channels

#1 qc_rds tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', tumour_sample:'tumour_sample1_name' ]`
`*_qc.rds` file	R object containing quality control results for the sample `*{_qc.rds}`

#2 versions

`versions.yml` file	YAML file containing versions of tools used in the module

#3 plot_pdf_qc tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', tumour_sample:'tumour_sample1_name' ]`
`*_qc.pdf` file	plots of the quality control results for the sample `*{_qc.pdf}`

#4 qc_plot_rds tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', tumour_sample:'tumour_sample1_name' ]`
`*_qc_plot.rds` file	R object containing plots of the quality control results for the sample `*{_qc_plot.rds}`

#5 data_plot_rds tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', tumour_sample:'tumour_sample1_name' ]`
`*_data_plot.rds` file	R object containing plots of the CNA statistics for the sample `*{_data_plot.rds}`
`*_qc_plot.rds` file	R object containing plots of the quality control results for the sample `*{_qc_plot.rds}`

#6 plot_pdf_data tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', tumour_sample:'tumour_sample1_name' ]`
`*_data.pdf` file	plots of the CNA statistics for the sample `*{_data.pdf}`

Tool	Description	Homepage
cnaqc	Copy number quality control	https://caravagnalab.github.io/CNAqc/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:31:38 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcnaqc/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/cnaqc/blobs/sha256:b9aacff557b1aa569768a8b245122d782de650406d7c872924080177119b1def
Size	4.7 KB
Checksum	sha256:b9aacff557b1aa569768a8b245122d782de650406d7c872924080177119b1def
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:31:38 (UTC)		1	4.7 KB	-