Metadata-Version: 1.1
Name: pyGenomeTracks
Version: 0.1
Summary: Set of programs to process, analyze and visualize Hi-C data
Home-page: http://pygenometracks.readthedocs.io
Author: Fidel Ramirez
Author-email: deeptools@googlegroups.com
License: LICENSE.txt
Description-Content-Type: UNKNOWN
Description: 
        pyGenomeTracks
        ==============
        
        Standalone program and library to plot beautiful genome browser tracks
        ----------------------------------------------------------------------
        
        pyGenomeTracks aims to produce high-quality genome browser tracks that
        are highly customizable. Currently, it is possible to plot:
        
         * bigwig 
         * bed (many options)
         * bedgraph
         * links (represented as arcs) 
        
        ![pyGenomeTracks example](https://github.com/maxplanck-ie/pyGenomeTracks/raw/master/pygenometracks/tests/test_data/master_plot.png)
        
        The configuration file for this image is [here](https://github.com/maxplanck-ie/pyGenomeTracks/blob/master/pygenometracks/tests/test_data/browser_tracks.ini)
        
        Installation
        ------------
        
        Currently, the best way to install pyGenomeTracks is
        
        ```bash
        $ pip install  git+https://github.com/maxplanck-ie/pyGenomeTracks.git
        ```
        
        Usage
        -----
        To run pyGenomeTracks a configuration file describing the tracks is required. The easiest way to create this file is using `make_tracks_file` which setups up a file with defaults that can be easily changed. The format is:
        
        ```bash
        $ make_tracks_file --trackFiles <file1.bed> <file2.bw> ... -o tracks.ini
        ```
        
        `make_tracks_file` uses the file ending to guess the file type. 
        
        Then, a region can be plotted using:
        
        ```bash
        $ pyGenomeTracks --tracks tracks.ini --region chr2:10,000,000-11,000,000 -o nice_image.pdf
        ```
        
        pyGenomeTracks is used by [HiCExporer](https://hicexplorer.readthedocs.io/) and [HiCBrowser](https://github.com/maxplanck-ie/HiCBrowser) (See e.g. [Chorogenome navigator](http://chorogenome.ie-freiburg.mpg.de/) which is made with HiCBrowser)
        
Platform: UNKNOWN
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
