Welcome to MicaFlow Documentation
================================

.. image:: _static/logo.png
   :height: 200
   :alt: MicaFlow Logo

MicaFlow is a comprehensive pipeline for processing structural and diffusion MRI data.

.. toctree::
   :maxdepth: 1
   :caption: Documentation:
   :hidden:

   getting_started
   pipeline
   examples
   scripts

Quick Navigation
---------------

* :doc:`getting_started` - Installation and basic usage
* :doc:`pipeline` - Pipeline overview and workflow details
* :doc:`examples` - Example workflows and use cases
* :doc:`scripts` - Command-line tools reference

.. note::
   This documentation is a work in progress. Please check back for updates!