Dear Krista,
You could use tools in fspython to rasterize the atlas, but it isn’t straightforward.
Would an MNI version of the atlas work? It’s on my to-do list (but deep into it and I never get to it!)
Cheers,
/Eugenio
--
Juan Eugenio Iglesias
http://www.jeiglesias.com
From:
freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Krista Wahlstrom <krista.wahlstrom@utah.edu>
Date: Friday, February 14, 2025 at 11:16 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Amygdala nuclei atlas
External Email - Use Caution
Good morning, Freesurfer team!
I'm interested in using the amygdala atlas created by Saygin ZM & Kliemann D et al., 2017 (High-resolution magnetic resonance imaging reveals nuclei of the human
amygdala: manual segmentation to automatic atlas). I understand this atlas is integrated into the Freesurfer software; however our research team uses an alternative software for human brain imaging processing. I'm wondering if it's possible to gain access
to the code for your segmentation of the amygdala so we can implement this atlas into our own imaging processing pipeline. I wasn't able to find the amygdala atlas code on the Freesurfer GitHub, but it's possible I wasn't looking in the correct repository.
Any help would be much appreciated!
Thanks,
Krista
****************************************
Krista Wahlstrom,
Ph.D.
University of Utah
Department of Psychology
Cognition & Neural Science | CNS
Postdoctoral Research Associate