outputtransform
===============

The outputtransform package contains functionality to perform the consensus workflow.
Individual search workflows, part of a joined search plan, are combined.

This includes:

* protein inference
* false-discovery-rate correction
* quantification
* spectral library generation.

.. autosummary::

   alphadia.outputtransform.df_builders
   alphadia.outputtransform.outputaccumulator
   alphadia.outputtransform.protein_fdr
   alphadia.outputtransform.quant_builder
   alphadia.outputtransform.search_plan_output
   alphadia.outputtransform.utils

.. automodule:: alphadia.outputtransform.df_builders
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.outputtransform.outputaccumulator
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.outputtransform.protein_fdr
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.outputtransform.quant_builder
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.outputtransform.search_plan_output
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: alphadia.outputtransform.utils
   :members:
   :undoc-members:
   :show-inheritance: