.. _analysis:

|

:Last modified: |today|

|

Data analysis
============= 

.. toctree::
    :maxdepth: 3

..    performance.rst


.. _cli:

command line interface
----------------------
The command line is a text interface for interacting with a computer.

.. toctree::
    :maxdepth: 2

    unix/cli.rst


.. _applications:

scientific applications
-----------------------
| Most 3rd party software is located in /usr/local.
| To find software, use the :ref:`which` command. 

.. toctree::
   :maxdepth: 2

   software/matlab/index.rst
   software/fsl.rst
   software/freesurfer.rst
   software/python/index.rst
   software/r.rst
   software/afni.rst

.. _sge:

Grid Engine
-----------
Grid Engine is batch processing software that queues and schedules jobs, so you can efficiently use computing resources, and analyze data in parallel.




.. toctree::
   :maxdepth: 2

   software/sge/scripting.rst 
   software/sge/commands.rst
   software/sge/memory.rst 
   software/sge/troubleshoot.rst
   software/sge/resources.rst