.. Kiwi documentation master file, created by
   sphinx-quickstart on Thu Jun 26 17:01:54 2014.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

Welcome to *Kiwi*!
================================

.. image:: kiwi_logo.png
	:width: 200
	:align: right
	
The *Kiwi* module combines geneset analyses with biological networks to visualize 
the interactions between genesets that are significant in a given biological system. 
Users can find *Kiwi* at the `Python Package Index (PyPI) <https://pypi.python.org/pypi/KiwiDist>`_ 
and it can be accessed as an online tool in the `BioMet Toolbox  <http://biomet-toolbox.org/index.php?page=tools-kiwi>`_. 
Developers can find *Kiwi* in `GitHub  <https://github.com/SysBioChalmers/Kiwi/>`_.
	
.. toctree::
   :maxdepth: 2
   
   installation
   tutorial
   reference manual
   api

Citation
--------------------
Please cite this paper within a publication that makes use of Kiwi:

* Väremo L., Gatto F. and Nielsen J. `Kiwi: a tool for integration and visualization of network topology and gene-set analysis <http://www.biomedcentral.com/1471-2105/15/408/abstract>`_, BMC Bioinformatics 2014, 15:408

Contact information
--------------------
To contact the developers for info or bug report: kiwi [at] sysbio [dot] se.

This project was carried out at `Systems and Synthetic Biology <http://www.sysbio.se/>`_ at `Chalmers University of Technology <http://www.chalmers.se/en/Pages/default.aspx>`_, Gothenburg, Sweden.
The developers wish to thank the Chalmers Foundation and the Alice and Knut Wallenberg Foundation for supporting this project.
		
Indices and tables
------------------

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

.. image:: sysbio_logo.png
	:height: 50
.. image:: chalmers_logo.png
	:height: 50