cnvkit

Copy number variant detection from targeted DNA sequencing

Install

All systems
curl cmd.cat/cnvkit.sh
Debian Debian
apt-get install cnvkit
Ubuntu
apt-get install cnvkit
image/svg+xml Kali Linux
apt-get install cnvkit
Windows (WSL2)
sudo apt-get update sudo apt-get install cnvkit
Dockerfile
dockerfile.run/cnvkit

cnvkit

Copy number variant detection from targeted DNA sequencing

A command-line toolkit and Python library for detecting copy number variants and alterations genome-wide from targeted DNA sequencing. 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.