Metadata-Version: 2.0
Name: vcfViewer
Version: 0.1
Summary: A toolkit for visualizing VCF metadata.
Home-page: https://github.com/tomsasani/vcfViewer
Author: Tom Sasani
Author-email: tom.sasani@utah.edu
License: MIT
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python :: 2.7
Requires-Dist: bokeh
Requires-Dist: cyvcf2
Provides-Extra: dev
Requires-Dist: check-manifest; extra == 'dev'
Provides-Extra: test
Requires-Dist: coverage; extra == 'test'

# vcfViewer
A toolkit for visualizing variant call format (VCF) file data.

*Developed by Tom Sasani for MDCRC 6521 at the University of Utah.*

## About

**vcfViewer** is a basic toolkit that allows users to create useful visualizations of VCF metadata in [bokeh](http://bokeh.pydata.org/en/latest/). For example, users can plot quality scores, 


## Usage

To visually determine which variants in a VCF meet a quality score threshold, simply run:

`python plot_qual.py [vcf] [threshold]`

## Dependencies

**bokeh** 

To install, run `conda install bokeh`.

**cyvcf2**

To install, run `pip install cyvcf2`.



