CNVpytor 1.3.1

Python extension of CNVnator

3D printable CNVpytor logo (stl file)

CNVpytor - a python extension of CNVnator

CNVpytor is a Python package and command line tool for CNV/CNA analysis from depth-of-coverage by mapped reads developed in Abyzov Lab, Mayo Clinic.

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Citing CNVpytor

CNVpytor: a tool for copy number variation detection and analysis from read depth and allele imbalance in whole-genome sequencing
Milovan Suvakov, Arijit Panda, Colin Diesh, Ian Holmes, Alexej Abyzov, GigaScience, Volume 10, Issue 11, November 2021, giab074 https://doi.org/10.1093/gigascience/giab074

Learn how to use CNVpytor in 10 minutes

• Geting started with command line interface
• Jupyter notebook: How to use CNVpytor from Python
• Google Colab: With CEPH trio example dataset
• Video Tutorial: 3-minute YT demo

Gallery

Manhattan plot (see example)	Circular plot (see example)
Region plot (see example)	Compare regions (see example)
Merging and annotating calls (see example)	Call somatic CNAs (see example)

Install

> pip install cnvpytor
> cnvpytor -download

Using

Check CNVpytor github page.

License

Released under MIT licence.