.. _home:

.. figure:: _static/BDE_Banner_revised20160211-01.jpg
   :align: center
   :figclass: align-center
   :target: http://brainandeducation.com


AFQ-Browser:
============

visualizing and sharing Automated Fiber Quantification results
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

This software generates a browser-based visualization of data processed with
the `Automated Fiber Quantification (AFQ) <https://github.com/yeatmanlab/AFQ>`_
software. For `example <https://yeatmanlab.github.io/AFQBrowser-demo/>`_.

Tractography based on diffusion weighted MRI (dMRI) is used to find  the major
white matter fascicles (tracts) in the living human brain. The health of these
tracts is an important factor underlying many cognitive and neurological
disorders. `AFQ` is a sofware package focused on automated delineation of the
major fiber tracts in individual human brains, and quantification of the
tissue properties within the tracts (`Yeatman et al. 2012 <http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0049790>`_).

This software package allows researchers to interactively query the data
processed with `AFQ` (or other similar software) to explore patterns in the
data.

AFQ-Browser paper
~~~~~~~~~~~~~~~~~

If you are interested in technical details and motivation behind this project, please read our `paper <https://www.nature.com/articles/s41467-018-03297-7>`_.

A slide presentation about the project is available `here <https://arokem.github.io/2019-OHBM-AFQ-Browser/>`_.

Acknowledgements
~~~~~~~~~~~~~~~~~~~

this work was supported by a grant from the `Gordon & Betty Moore Foundation <https://www.moore.org/>`_,  and from the `Alfred P. Sloan Foundation <http://www.sloan.org/>`_ to the `University of Washington eScience Institute <http://escience.washington.edu/>`_.

Documentation
~~~~~~~~~~~~~~~~~
    .. toctree::
       :maxdepth: 2

       installation_guide
       usage_guide
       getting_help
       dataformat
       long_term_preservation
       binder_integration
       api



.. _AFQ: http://github.com/yeatmanlab/AFQ