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

This section documents the ProtParCon core API, and it is intended for 
developers and experienced users to extend ProtParCon.

msa
~~~

.. automodule:: ProtParCon.msa
    :members:
    :private-members:


asr
~~~
.. automodule:: ProtParCon.asr
    :members:
    :private-members:

imc
~~~

.. automodule:: ProtParCon.imc
    :members:
    :private-members:

detect
~~~~~~

.. automodule:: ProtParCon.detect
   :members:
   :private-members:

sim
~~~

.. automodule:: ProtParCon.sim
    :members:
    :private-members:


aut
~~~

.. automodule:: ProtParCon.aut
    :members:
    :private-members:


mlt
~~~

.. automodule:: ProtParCon.mlt
    :members:
    :private-members:


utilities
~~~~~~~~~

.. autofunction:: ProtParCon.utilities.basename
.. autofunction:: ProtParCon.utilities.modeling
.. autofunction:: ProtParCon.utilities.trim
.. autoclass:: ProtParCon.utilities.Tree
    :members:
    :private-members: