.. toctree::
   :maxdepth: 2
   :caption: Getting Started

   GettingStarted/install
   GettingStarted/intro
   
.. toctree::
   :maxdepth: 2
   :caption: Open-MiChroM Modules

   OpenMiChroM

.. toctree::
   :maxdepth: 2
   :caption: Tutorials

   Tutorials/Tutorial_MiChroM_Simulation
   Tutorials/Tutorial_Single_Chromosome
   Tutorials/Tutorial_Multiple_Chromosomes
   Tutorials/Tutorial_MiChroM_Optimization
   Tutorials/Tutorial_Full_Inversion_Optimization
   Tutorials/Tutorial_Pulling
   Tutorials/Tutorial_Active_Polymer


.. toctree::
   :maxdepth: 2
   :caption: Reference

   Reference/citing
   Reference/references
   Reference/license

Indices and tables
==================

* :ref:`genindex`
* :ref:`modindex`
* :ref:`search`