.. automodule:: obiannotate

   .. include:: ../optionsSet/defaultoptions.txt
   
   .. include:: ../optionsSet/inputformat.txt
   
   .. include:: ../optionsSet/taxonomyFilter.txt
   
   .. include:: ../optionsSet/sequenceFilter.txt


   :py:mod:`obiannotate` specific options
   --------------------------------------   

   .. cmdoption::  -c, --clear   
   
                   clear all tags [default : False]

   .. cmdoption::  -k <TAG>, --keep=<TAG>  
   
                   keep only this TAG
                   