CNVpytor 1.0b2

Python extension of CNVnator

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.

NEW: CNVpytor release ver 1.0 is available to install!

Learn how to use CNVpytor in 10 minutes

• Geting started with command line interface
• Jupyter notebook: How to use CNVpytor from Python

Gallery

Manhattan plot (see example)	Circular plot (see example)
Region plot (see example)	Compare regions (see example)

Dependencies

• requests>=2.0
• gnureadline
• pysam>=0.15
• numpy>=1.16
• scipy>=1.1
• matplotlib>=2.2
• h5py>=2.9

Optional:

• pyBigWig - for JBrowse export functionality
• ROOT - for CNVnator root import/export functionality
• seaborn - for additional plotting styles

Install

> pip install cnvpytor
> cnvpytor -download

Using

Check CNVpytor github page.

License

Released under MIT licence.