Guide to Kartograf
=====================

.. toctree::
   :maxdepth: 2
   :caption: Applications:

   guide/application_reindexing_problem
   guide/application_free_energies_system_representations


.. toctree::
   :maxdepth: 2
   :caption: Algorithms:

   guide/atom_mapping
   guide/atom_mapping_scoring
   guide/molecule_alignment