Tutorial Section
****************

This section demonstrates the usage of MiModD by re-analysis of a number
of published WGS datasets from different organisms. We will explain in
detail the individual steps of each analysis and, following these steps,
you will get to know much of the functionality of MiModD.


Downloading example data
========================

All datasets used in this section are available as additional files from the 
`MiModD download site <http://sourceforge.net/projects/mimodd/files/Example%20Datasets/>`__. 

The dataset downloads for each example are packed as .tar.gz archives, which 
you need to unpack after downloading either with a graphical download manager 
or, through the command line, by running::

  cd <path/to/unpack_directory>

to set your current working directory to the directory that you want to extract 
the example data into, then::

  tar -xzf <path/to/downloaded_archive>

to extract the data from the downloaded archive.


Outline
=======

This tutorial comprises three example analyses for three different model 
organisms. The analyses workflows are increasing in complexity from example to 
example, so if you are an absolute beginner in WGS analysis, we recommend you 
to go through them one by one. 
Users with a bit of background, on the other hand, may jump to the example that 
looks most interesting to them directly.

Here is the list of the example analyses:

.. toctree::
   :maxdepth: 1
   
   tutorial_example1 
   tutorial_example2
   tutorial_example3