.. MacSyFinder - Detection of macromolecular systems in protein datasets
    using systems modelling and similarity search.            
    Authors: Sophie Abby, Bertrand Néron                                 
    Copyright © 2014  Institut Pasteur, Paris.                           
    See the COPYRIGHT file for details                                    
    MacsyFinder is distributed under the terms of the GNU General Public License (GPLv3). 
    See the COPYING file for details.  
    
.. _profile:

***********
Profile API
***********

The :ref:`Profile object <profile-implementation>` is used for the search of the gene with Hmmer. A *"Profile"* must match a HMM protein profile file, which name is based on the profile name. For instance, the *gspG* gene has the corresponding "gspG.hmm" profile file provided at a dedicated location.  
 

ProfileFactory API reference
============================
 .. automodule:: macsypy.gene
   :members: ProfileFactory
   :private-members:
   :special-members:

     
Profile API reference
======================

.. automodule:: macsypy.gene
   :members: Profile
   :private-members:
   :special-members: