OBITools scripts
================

OBITools scripts are developed mainly for manipulating large sequence 
files generated by the next generation sequencers. To assume this function
they are mainly design to manipulate DNA sequences in :ref:`fasta <classical-fasta>` and fastq format.




TODO: Should be probably reorganised, may be:
    - basic commands (:py:mod:`obistat`, :py:mod:`obicount`, :py:mod:`obihead`, ...)
    - bioinformatic commands (:py:mod:`obicomplement`, :py:mod:`obisample`, ...)
    - scripts (:py:mod:`ngsfilter`, :py:mod:`solexaPairEnd`, :py:mod:`obiclean`, ...). 

Contents:

.. toctree::
   :maxdepth: 2
   
   conversions
   annotations
   manipulations
   filtering
   statistics
   utilities
