nf-core/cnvkit/call @ 0.0.0-3fc6d40
Summary
Given segmented log2 ratio estimates (.cns), derive each segment’s absolute integer copy number
Get started
Add the following snippet to your workflow script to include this module.
include { CNVKIT_CALL } from 'nf-core/cnvkit/call'
License
MIT License
Process
Name
|
CNVKIT_CALL |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
cns
file
|
CNVKit CNS file. *.cns
|
vcf
file
|
Germline VCF file for BAF. *.vcf{,.gz}
|
Output
2 channels
#1
cns
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.cns
file
|
CNS file. *.cns
|
#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 15:07:14 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fcnvkit%2Fcall/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/cnvkit/call/blobs/sha256:a626399d9137fb1138bc62e9758d12f9f5fa3c1efe6db1ad51be28c94c402251 |
| Size | 2.5 KB |
| Checksum | sha256:a626399d9137fb1138bc62e9758d12f9f5fa3c1efe6db1ad51be28c94c402251 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:10:40 (UTC) | 4 | 2.4 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:07:14 (UTC) | 3 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:53:05 (UTC) | 3 | 2.4 KB |