nf-core/cnvkit/reference @ 0.0.0-3fc6d40
Summary
Compile a coverage reference from the given files (normal samples).
Get started
Add the following snippet to your workflow script to include this module.
include { CNVKIT_REFERENCE } from 'nf-core/cnvkit/reference'
License
MIT License
Process
Name
|
CNVKIT_REFERENCE |
|---|
Input
3 channels
fasta
file
|
File containing reference genome *.{fasta}
|
|---|
targets
file
|
File containing genomic regions *.{bed}
|
|---|
antitargets
file
|
File containing off-target genomic regions *.{bed}
|
|---|
Output
2 channels
#1
cnn
*.cnn
file
|
File containing a copy-number reference (required for CNV calling in tumor_only mode) *.{cnn}
|
|---|
#2
versions_cnvkit
tuple
${task.process}
string
|
The name of the process |
|---|---|
cnvkit
string
|
The name of the tool |
cnvkit.py version | sed -e "s/cnvkit v//g"
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| cnvkit | CNVkit is a Python library and command-line software toolkit to infer and visualize copy number from high-throughput DNA sequencing data. It is designed for use with hybrid capture, including both whole-exome and custom target panels, and short-read sequencing platforms such as Illumina and Ion Torrent. | https://cnvkit.readthedocs.io/en/stable/index.html |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:07:18 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fcnvkit%2Freference/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/cnvkit/reference/blobs/sha256:717ee18401ef22192f1ea3ccbcdc410ab8e5f2106f8b6752f2077867be839242 |
| Size | 2.4 KB |
| Checksum | sha256:717ee18401ef22192f1ea3ccbcdc410ab8e5f2106f8b6752f2077867be839242 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:10:44 (UTC) | 4 | 2.4 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:07:18 (UTC) | 3 | 2.4 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:53:11 (UTC) | 3 | 2.3 KB |