search.scoring
==============

The scoring package performs scoring of peak group candidates by calculating their features.

.. autosummary::

   alphadia.search.scoring.scoring
   alphadia.search.scoring.config
   alphadia.search.scoring.containers
   alphadia.search.scoring.output
   alphadia.search.scoring.scoring_utils
   alphadia.search.scoring.utils
   alphadia.search.scoring.features.features_utils
   alphadia.search.scoring.features.fragment_features
   alphadia.search.scoring.features.location_features
   alphadia.search.scoring.features.precursor_features
   alphadia.search.scoring.features.profile_features
   alphadia.search.scoring.features.reference_features

.. automodule:: alphadia.search.scoring.scoring
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.search.scoring.config
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.. automodule:: alphadia.search.scoring.containers
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.. automodule:: alphadia.search.scoring.output
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   :show-inheritance:

.. automodule:: alphadia.search.scoring.scoring_utils
   :members:
   :undoc-members:
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.. automodule:: alphadia.search.scoring.utils
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   :undoc-members:
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.. automodule:: alphadia.search.scoring.quadrupole
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Features
--------

.. automodule:: alphadia.search.scoring.features.features_utils
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.search.scoring.features.fragment_features
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.search.scoring.features.location_features
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.search.scoring.features.precursor_features
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.search.scoring.features.profile_features
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.search.scoring.features.reference_features
   :members:
   :undoc-members:
   :show-inheritance: