Metadata-Version: 2.1
Name: CNVpytor
Version: 1.0b3
Summary: Python extension of CNVnator
Home-page: https://github.com/abyzovlab/CNVpytor
Author: Milovan Suvakov, Abyzov Lab, Mayo Clinic
Author-email: suvakov@gmail.com
License: UNKNOWN
Description: ![CNVpytor Logo](https://raw.githubusercontent.com/abyzovlab/CNVpytor/master/cnvpytor/imgs/cnvpytor_w_640.png)
        
        # 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](https://github.com/abyzovlab/CNVpytor/blob/master/GettingStarted.md) with command line interface
        * [Jupyter notebook](https://github.com/abyzovlab/CNVpytor/blob/master/examples/CNVpytor.ipynb): How to use CNVpytor from Python 
        
        ## Gallery
        
        | | |
        |---|---|
        | Manhattan plot ([see example](https://github.com/abyzovlab/CNVpytor/blob/master/examples/manhattan.md))| Circular plot ([see example](https://github.com/abyzovlab/CNVpytor/blob/master/examples/circular.md))|
        |<img src="https://raw.githubusercontent.com/abyzovlab/CNVpytor/master/imgs/manhattan.png" width="512px">|<img src="https://raw.githubusercontent.com/abyzovlab/CNVpytor/master/imgs/circular.png" width="512px">|
        | Region plot ([see example](https://github.com/abyzovlab/CNVpytor/blob/master/examples/region.md))| Compare regions ([see example](https://github.com/abyzovlab/CNVpytor/blob/master/examples/compare.md))|
        |<img src="https://raw.githubusercontent.com/abyzovlab/CNVpytor/master/imgs/region.png" width="512px">|<img src="https://raw.githubusercontent.com/abyzovlab/CNVpytor/master/imgs/compare.png" width="512px">|
        
        ## 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](https://github.com/abyzovlab/CNVpytor).
        
        ## License
        
        Released under MIT licence.
        
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.5
Classifier: Programming Language :: Python :: 3.6
Classifier: Programming Language :: Python :: 3.7
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Description-Content-Type: text/markdown
