.. MIP_api documentation master file, created by
   sphinx-quickstart on Wed Sep  4 10:33:34 2013.
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.. image:: _static/mip-logo.png

Release |version|.

`MIP <https://github.com/henrikstranneheim/MIP>`_ is a pipeline for clinical analysis of 
whole exome and whole genome sequence data.


Contents:

.. toctree::
   :maxdepth: 2
   
   MIP_overview
   installation
   setup
   adding-new-programs
   structure
   vcfParser
   qcCollect
   score_mip_variants
   configuration_file
   pedigree_file
   IDN
   the_code



Indices and tables
==================

* :ref:`genindex`
* :ref:`modindex`
* :ref:`search`