Tool Details Overview
=====================

The pages linked towards the bottom provide information about the tools used
for HBCD processing. Details including which arguments
are used for processing, and which files are required for processing
are also found in these pages.

These pages are intended to provide a general reference for users who are
interested in understanding how processing is conducted. All pages
that you see below are auto-populated based on the processing configuration
files in the `HBCD_CBRAIN_PROCESSING repository <https://github.com/erikglee/HBCD_CBRAIN_PROCESSING>`_,
and versions of the Boutiques descriptors that we have stored in CBRAIN.
For HBCD datasets that are processed in `CBRAIN <https://cbrain.ca/>`_, similar information is
also (for the most part) automatically saved out to the subject level or session level derivatives folder.
These files are directly derived from the processing task, providing a more accurate and robust
description than the summary provided here. If you are interested in learning
about these files, please see :doc:`this page <hidden_proc_details_folder>`. 


Tool Names
~~~~~~~~~~


.. toctree::
   :maxdepth: 2

   tools/bibsnet
   tools/hbcd_motion
   tools/hbcd_qc
   tools/made
   tools/mriqc
   tools/nibabies
   tools/osprey
   tools/qmri_postproc
   tools/qsiprep
   tools/qsirecon
   tools/xcp_d