Documentation for AlphaPeptDeep (PeptDeep)
=====================================

The deep learning framework for MS proteomics.
For more information, see AlphaPeptDeep on `GitHub <https://github.com/MannLabs/alphapeptdeep/>`_.

.. toctree::
   :maxdepth: 2

   notebooks

   modules_protein
   module_pipeline_api
   module_pretrained_models
   modules_model
   module_settings
   modules_rescore
   modules_spec_lib
   modules_mass_spec