API Reference
==============

Complete API reference for all public functions, classes, and modules.

Core
----

Core data structures and classes for phylogenetic networks and related structures.

.. toctree::
   :maxdepth: 3
   
   core/index

Visualization
-------------

Network visualization and plotting.

.. toctree::
   :maxdepth: 3
   
   viz/index

Utilities
---------

Utility functions and classes used throughout PhyloZoo.

.. toctree::
   :maxdepth: 3
   
   utils/index