Dear Jessica, You can register your image to the atlas, and then apply the same transform to the segmentations (“propagate”). That will bring the segmentations to atlas (Brainnetome) space. I hope this helps, /E
-- Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Jessica Bourgin <jessica.bour...@univ-smb.fr> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Date: Wednesday, 7 August 2019 at 13:44 To: freesurfer <freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Transform hippocampal/amygdala segmentation to another space External Email - Use Caution Dear Juan Eugenio, Thanks a lot for your quick response. I don't understand what you mean exactly by "propagate the hard segmentations". And when you say to register the subjects to the Brainnetome, do you mean replace the atlas used by recon-all to do that ? (sorry, I am currently a PhD student with little experience in neuroimaging). You also mention that the transformation is not trivial. But do you think this is "correct" to make it ? Thanks for your help ! Cheers, Jessica BOURGIN Laboratoire de Psychologie et Neurocognition CNRS UMR 5105 Université Savoie Mont Blanc (USMB) BP 1104 73011 Chambery Cedex France
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