.. meta::
   :description: Official documentation for macho:  Machine Annotation for the Open Connectome Project
   :keywords: annotation, tracing, neuroscience, object detection
.. title::
   macho

.. raw:: html

	<h1>macho:  Machine Annotation for the Open Connectome Project</h1>
	<br>


macho provides interfaces for a collection of popular machine learning and computer vision tools used in neuroscience.  This includes ilastik, gala, and rhoana in its initial release.  

.. figure:: images/macho_example.png
    :width: 800px
    :align: center


.. raw:: html
 
  <div>
    <img style="width:30px;height:30px;vertical-align:middle">
    <span style=""></span>
    <IMG SRC="_static/GitHub.png" height="50" width="50"> <a href="https://github.com/openconnectome/macho/zipball/master"> [ZIP]   </a>  
    <a image="_static/GitHub.png" href="https://github.com/openconnectome/macho/tarball/master">[TAR.GZ] </a></p>
  </div>


.. sidebar:: macho Contact Us 
   
   If you have questions about macho, or have data to analyze, let us know:  ocp-support@googlegroups.com
   
.. toctree::
   :maxdepth: 1
   :caption: Documentation

   sphinx/introduction
   sphinx/local_config
   sphinx/ocp
   sphinx/faq
   
.. toctree::
   :maxdepth: 1
   :caption: Tools

   tutorials/ilastik
   tutorials/gala
   tutorials/rhoana
   tutorials/membrane
   tutorials/axreticula
   tutorials/blockmerge
   
.. toctree::
   :maxdepth: 1
   :caption: Further Reading

   api/functions
   api/modules
   Gitter chatroom <https://gitter.im/openconnectome/macho>
   Mailing List <https://groups.google.com/forum/#!forum/ocp-support/> 
   Github repo <https://github.com/openconnectome/macho>
   Release Notes <https://github.com/openconnectome/macho/releases/>

.. If you use macho or its data derivatives, please cite:
..   W Gray Roncal, ZH Koterba, D Mhembere, DM Kleissas, JT Vogelstein, R Burns, AR Bowles, DK Donavos, S Ryman, RE Jung, L Wu, V Calhoun, RJ Vogelstein. MIGRAINE: MRI Graph Reliability Analysis and Inference for Connectomics. GlobalSIP, 2013 `arXiv <http://arxiv.org/abs/1312.4875>`_ `bibtex <http://openconnecto.me/data/public/MR/MIGRAINE_v1_0/migraine.bib>`_