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Hello FreeSurfer Experts,
I have visually checked 116 subjects that have been processed using Freesurfer's latest hippocampal/amygdala subfield segmentation algorithm (Development version 20180518 https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldsAndNucleiOfAmygdala) and came across 5 cases that failed the QC. My T1s had been processed using FS 5.3, and I used the command "segmentHA_T1.sh" from the latest Dev version.
- 3 subjects are missing a mask of the anterior amygdaloid area (AAA), but in the volumetric output, there are values for the regions.
- 2 subjects' medical nuclei masks are located in the Putamen region (more superior/detached from the rest of the amygdala).
I found the exact same inquiry RE: AAA region posted on April 30, 2019, but I did not see any response.
What would be your recommended course of action to resolve these issues? Is there a way to see volumetric measures in the freeview GUI (when clicking a region) to possibly manually trace the missing regions?
Thank you for your time,