.. image:: graphics/Northwestern_purple_RGB.png
   :width: 30%
   :align: right
   :alt: nulogo
   :target: https://amaral.northwestern.edu/

.. _documentation:

Documentation
=============

**Fly-QMA** is organized into several complementary submodules, all of which utilize a standard :ref:`file structure <filestructure>`. Please follow the table of contents below for detailed descriptions of the modules and their respective functionalities.

.. toctree::
   :maxdepth: 1

   Data Module <modules/data>
   Measurement Module <modules/measurement>
   Selection Module <modules/selection>
   Annotation Module <modules/annotation>
   Bleedthrough Module <modules/bleedthrough>
   Analysis Module <modules/analysis>