.. pyDNase documentation master file, created by
   sphinx-quickstart on Thu Aug  1 15:33:06 2013.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

.. include:: ../README.rst

Contents
--------
.. toctree::
   :maxdepth: 2
   
   installation
   bam
   intervals
   footprinting
   scripts
   faqs

.. *installation
.. *Querying a BAM File for cut data
.. *Working with Intervals
.. *Footprinting
.. *Scripts
.. *FAQS
.. *pyDNase Reference
.. 
.. 
.. 
.. Indices and tables
.. ==================
.. 
.. * :ref:`genindex`
.. * :ref:`search`
.. 
.. 
.. Indices and tables23
.. ====================
.. 
.. .. automodule:: pyDNase
..    :members:
..    :special-members: