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

This is the auto-generated reference for LipiDetective's public API.

Models
------

.. autoclass:: lipidetective.TransformerNetwork
   :members:
   :undoc-members:

.. autoclass:: lipidetective.ConvolutionalNetwork
   :members:
   :undoc-members:

.. autoclass:: lipidetective.FeedForwardNetwork
   :members:
   :undoc-members:

.. autoclass:: lipidetective.RandomForest
   :members:
   :undoc-members:

Workflow
--------

.. autoclass:: lipidetective.Trainer
   :members:
   :undoc-members:

.. autoclass:: lipidetective.H5Dataset
   :members:
   :undoc-members:

.. autoclass:: lipidetective.PredictionDataset
   :members:
   :undoc-members:

.. autoclass:: lipidetective.LightningModule
   :members:
   :undoc-members:

Helpers
-------

.. autoclass:: lipidetective.LipidLibrary
   :members:
   :undoc-members:

.. autofunction:: lipidetective.read_yaml

.. autofunction:: lipidetective.write_yaml

.. autofunction:: lipidetective.resolve_config_paths

.. autofunction:: lipidetective.set_seeds

.. autofunction:: lipidetective.get_project_root

.. autofunction:: lipidetective.resolve_data_path

.. autofunction:: lipidetective.resolve_model_path

.. autofunction:: lipidetective.resolve_output_path

.. autofunction:: lipidetective.resolve_config_path