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Python extension of CNVnator

Project description

CNVpytor Logo

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

Gallery

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

Dependencies

  • requests>=2.0
  • gnureadline
  • pathlib>=1.0
  • 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.

Project details


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Files for CNVpytor, version 1.0
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