Re: [Freesurfer] Is amygdala nuclei segmentation possible in freesurfer version 5.3?

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Dear Sally, You will need to download the development version to access this functionality. However, if you have already run your subjects through recon-all with FS5.3, you can directly call segmentHA_T1.sh/ segmentHA_T2.sh/ segmentHA_T1_long.sh in the dev version (no need to run recon-all again with dev). Cheers, /Eugenio

-- Juan Eugenio Iglesias ERC Senior Research Fellow Centre for Medical Image Computing (CMIC) University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/

From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Sally Grace sgrace@swin.edu.au Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Wednesday, 6 June 2018 at 03:16 To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Is amygdala nuclei segmentation possible in freesurfer version 5.3?

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Hi there,

I wish to segment amygdala nuclei in Freesurfer Version 5.3, is it possible? I can find documentation only for Freesurfer version 6.0 here (https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldsAndNucleiOfAmy...). Can the scripts be adapted to Freesurfer v5.3?

Thanks in advance,

Sally. HippocampalSubfieldsAndNucleiOfAmygdala - Free Surfer Wikihttps://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldsAndNucleiOfAmygdala surfer.nmr.mgh.harvard.edu Segmentation of hippocampal subfields and nuclei of the amygdala (cross-sectional and longitudinal) This functionality has been available in the development version of FreeSurfer since August 31st 2017