API Documentation
==============================

Here is the API Documentation.

The following API represents the MoleculeVisualizer, which is responsible for the display of the
molecule in IPywidgets.


OpenMMDL Analysis API
------------------------------
**OpenMMDL Analysis** consists of **analysis**, **core** and **visualization** modules.

Here is the API of the **analysis** modules:

.. toctree::
   :maxdepth: 3
   :caption: API Analysis Modules:

   modules/openmmdl_analysis/analysis/bindingmodes
   modules/openmmdl_analysis/analysis/interactions
   modules/openmmdl_analysis/analysis/markovchains
   modules/openmmdl_analysis/analysis/rmsd
   modules/openmmdl_analysis/analysis/stablewaters


Here is the API of the **core** modules:

.. toctree::
   :maxdepth: 3
   :caption: API Core Modules:

   modules/openmmdl_analysis/core/preprocessing
   modules/openmmdl_analysis/core/trajectories
   modules/openmmdl_analysis/core/utils

Here is the API of the **visualization** modules:

.. toctree::
   :maxdepth: 3
   :caption: API Visualization Modules:

   modules/openmmdl_analysis/visualization/barcodes
   modules/openmmdl_analysis/visualization/figures
   modules/openmmdl_analysis/visualization/highlighting
   modules/openmmdl_analysis/visualization/pharmacophore
   modules/openmmdl_analysis/visualization/visualization