Module Reference
================

This section provides an overview of the project's Python modules, 
organized by functionality to make navigation easier.  
Each module reference contains descriptions of the main classes, functions, 
and their roles within the quantum protein folding framework.

.. toctree::
   :maxdepth: 2

   core
   backend
   builder
   contact
   distance
   interaction
   logger
   protein
   result
   utils

.. note::
   The documentation is generated via :mod:`sphinx.ext.autodoc`. Make sure the
   project dependencies are installed before building the docs.