ThorAxe's documentation!
========================

*Assessing Conservation of Alternative Splicing with Evolutionary Splicing Graphs*

Check out our `YouTube tutorial`_ to see how you can easily use *ThorAxe* and 
visualise the results! If you want to know more, you can read our 
`Genome Research`_ publication. 

If you find *ThorAxe* useful on your research, **please cite us!**

   Zea DJ, Laskina S, Baudin A, Richard H, Laine E. **Assessing conservation of 
   alternative splicing with evolutionary splicing graphs.** *Genome Research.* 
   2021 Jun 15:gr-274696. doi: 10.1101/gr.274696.120.


.. note::
   *ThorAxe* can be run on the `Ases web server`_, allowing for a convenient 
   display of its output. *Ases* makes it easy to run *ThorAxe* and explore and 
   share its results with others.

.. toctree::
   :maxdepth: 4

   installation
   introduction
   Command line programs <programs/programs>
   output
   Module API <api/modules>


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

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


.. _YouTube tutorial: https://www.youtube.com/watch?v=Z96985kX-uY
.. _Genome Research: https://genome.cshlp.org/content/31/8/1462
.. _Ases web server: http://www.lcqb.upmc.fr/Ases