Apologies if your message feel in the cracks.

If you want to visualize the atlas, you can use a (very buggy) program called kvlViewMeshCollectionWithGUI.

First, source Freesurfer and cd into the following directory:

cd $FREESURFER_HOME/average/hippoSF/atlas

Then, run the following command

kvlViewMeshCollectionWithGUI AtlasMesh.gz

Once the GUI has opened, selected Mesh Number: Reference mesh.

Finally, check “show summary” to produce the color-coded image.

Cheers,

/Eugenio

Juan Eugenio Iglesias

ERC Senior Research Fellow
Translational Imaging Group
University College London
http://www.jeiglesias.com
http://cmictig.cs.ucl.ac.uk/

On 12 May 2017, at 20:43, Julian Jäckle <jaecklejulian@googlemail.com> wrote:

Dear all

I know that i’ve posted this question before, but yet nobody replied and we do really need an answer to close our project.

Your “Segmentation of hippocampal subfields” wiki article refers to the publication: “A computational atlas of the hippocampal formation using ex vivo, ultra-high resolution MRI: Application to adaptive segmentation of in vivo MRI“. Within the paper there are two figures No. 4 & 6 demonstrating the probabilistic atlas and mesh deformation. We do need to know how you created these illustrations.

I attached one of the images as an example

Thanks a lot

Julian

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