.. micca documentation master file, created by
   sphinx-quickstart on Mon Jan 25 15:45:26 2016.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

.. include:: ../../README.rst

.. toctree::
   :maxdepth: 1
   :caption: Getting Started

   install
   databases

.. toctree::
   :maxdepth: 1
   :caption: Tutorials

   pairedend_97
   denoising_illumina
   singleend
   phyloseq
   table
   picrust

.. toctree::
   :maxdepth: 1
   :caption: In Depth

   otu
   formats
   changes

.. toctree::
   :glob:
   :maxdepth: 1
   :caption: Command reference

   commands/*

.. Indices and tables
.. ==================
..
.. * :ref:`genindex`
.. * :ref:`modindex`
.. * :ref:`search`