Restricted access applications
==============================

.. _constellation:

Constellation: Connectivity-based Parcellation
----------------------------------------------

.. raw:: html
    :file: carousels/car_constellation_big.html

.. older :    <!--#include file="carousels/car_constellation_big.html" -->

Cortex parcellation based on structural connectivity information. It performs group-wise parcellations, either on a "group-only" basis (one group result), or provides individual results, from a group analysis. The whole cortex is parcelled by patches.

This toolbox, developed in NeuroSpin / UNATI lab, will be released "soon" when it is completely ready.

:morphoproc:`Constellation toolbox brainvisa help pages <categories/constellation/category_documentation.html>`


.. _connectomist:

Connectomist 2: Diffusion MRI and connectivity
----------------------------------------------

.. raw:: html
    :file: carousels/car_connectomist_big.html

Diffusion imaging processing, tractography and bundles analysis.

Connectomist-2 is developed by The UNIRS lab of NeuroSpin (Cyril Poupon), in a different software framework, but is also using Anatomist for all visualization needs. It features dMRI preprocessings (outliers detection, distortion correction), local diffusion models processing, tractography, and fibers bundles post-processing (bundles measurements, clustering...).


.. _disco:

DISCO: constraints-based diffeomorphic registration
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.. raw:: html

    <div class="imgbox" style="width: 700px;">
      <img src="_static/images/disco.png" style="height: 500px;" />
    </div>

Diffeomorphic structural-based cortical registration: 3D registration using sulcal constraints.

:morphoproc:`DISCO toolbox brainvisa help pages <categories/disco/category_documentation.html>`

.. |cati_logo| image:: images/labs/cati_logo.png
    :target: https://cati-neuroimaging.com
    :height: 32

.. |hbp_logo| image:: images/labs/hbp_logo.png
    :target: https://www.humanbrainproject.eu/
    :height: 32

DISCO is developed both by the `MeCA research group in Marseille <https://www.meca-brain.org/softwares/>`_, the |hbp_logo| `Human Brain Project <https://www.humanbrainproject.eu/>`_ and the |cati_logo| `CATI project labs <https://cati-neuroimaging.com>`_


.. _nuclear_imaging:

Nuclear imaging toolbox
-----------------------

.. raw:: html
    :file: carousels/car_nuclearimaging_big.html

A toolbox for BrainVISA developed by the |cati_logo| `CATI project labs <https://cati-neuroimaging.com>`_


.. _baby:

Baby toolbox
------------

.. raw:: html
    :file: carousels/car_baby_big.html

Semi-automatic segmentation toolbox for T2-weighted neonatal MRI images. This toolbox has been developed in Neurospin in the Developing Brain team. It is derived from :doc:`morphologist` with adaptations to take into account the T2-weighted image contrast, the partially myelinated nature of baby brains, thus involving some steps of manual corrections, alterning automatic and interactive parts.

The toolbox is used internally and has no public release up to now.


.. _sacha:

SACHA: Hippocampus segmentation and morphometry
-----------------------------------------------

.. image:: images/logo_SACHA_white.jpg
    :target: http://www.aramislab.fr/software-2/
    :class: imgbox
    :width: 400

Automatic segmentation of hippocampus and amygdalia. Developed by the `Aramis team, ICM, Paris <http://www.aramislab.fr/>`_.


.. _whasa:

WHASA: White matter hyper-intensities segmentation
--------------------------------------------------

.. raw:: html

    <div class="imgbox" style="width: 400px; height: 200px; line-height: 200px;">
      <a href="http://www.aramislab.fr/software-2/">
        <img src="images/whasa.jpg" style="height: 150px; position: relative; bottom: 0px; margin-top: 50px;" />
      </a>
    </div>

Developed by the `Aramis team, ICM, Paris <http://www.aramislab.fr/>`_.