Morphologist

Brain segmentation and sulcal analysis

[FISCHER2012]
  1. Fischer, G. Operto, S. Laguitton, M. Perrot, I. Denghien, D. Rivière, and J.-F. Mangin: Morphologist 2012: the new morphological pipeline of BrainVISA, In Proc. HBM, 2012. link bibtex-entry

Morphologist UI

Morphologist now has a new graphical interface, featuring simplified user experience and quick interactive visualization:

_images/morphologist-ui.jpg

Docmentation can be found here

It can be run either as a standalone program (morphologist), or through BrainVISA.

Morphologist toolbox in Brainvisa

BSA Atlas (Brainvisa Sulci atlas) v.2011

This atlas gives the probability of finding various cortical folds or gray nuclei across a population.

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Probability maps

Probability maps corresponding to a few anatomical landmarks (cortical folds) overlaid on a T1 template
_images/atlas_sulci_small.jpg

Outlines

The outline at 50% of all the structures
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Labels location

Location of sulcal labels mapped on a 3D representation of a refined version of the anatomical atlas (after a sulcuswise non-linear registration scheme).
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HBM 2011 poster

A high-resolution full-brain probabilistic atlas of regions based on cortical folds
_images/brainvisa_sulci_atlas_with_table_small.jpg

Atlas of Sulci with nomenclature table

Location of sulci named by their Brainvisa acronyms or their full anatomical names

Downloads

References

Atlas estimation

[PERROT2009]
  1. Perrot, D. Riviere, A. Tucholka, J.-F. Mangin : Joint Bayesian Cortical Sulci Recognition and Spatial Normalization, IPMI 2009 link bibtex-entry paper
[PERROT2011]
  1. Perrot, D. Rivière, and J.-F. Mangin. Cortical sulci recognition and spatial normalization. Medical Image Analysis 2011 link bibtex-entry paper

Applications

Defining anatomo-functional parcels
[TUCHOLKA2008]Alan Tucholka, Bertrand Thirion, Matthieu Perrot, Philippe Pinel, Jean-François Mangin and Jean-Baptiste Poline : Probabilistic Anatomo-Functional Parcellation of the Cortex : How Many Regions ?, MICCAI 2008 link bibtex-entry paper
Refining functional MRI analysis
[KELLER2009]Merlin Keller, Marc Lavielle, Matthieu Perrot and Alexis Roche. Anatomically Informed Bayesian Model Selection for fMRI Group Data Analysis. MICCAI 2009 link bibtex-entry paper
Functional connectivity
[VAROQUAUX2010]Gaël Varoquaux, Alexandre Gramfort, Jean-Baptiste Poline, Bertrand Thirion. Brain covariance selection : better individual functional connectivity models using population prior. NIPS 2010 link