I've run into an issue with the longitudinal hippocampus/amygdala segmentation (segmentHA_T1_long.sh). All of the commands ran properly and I got the outputs listed on the FreeSurfer wiki but, upon QAing the segmentations, I realized that a few subjects hippocampal segmentations were a poor fit. It appears that the segmentation includes their parahippocampal gyrus. I'm wondering if you have any recommendations for how to fix these either manually or automatically? Thank you!
Kindly,
Franchesca
Franchesca Kuhney, M.A. (she/her)
Clinical Psychology Doctoral Student
University of Illinois at Chicago
Behavioral Sciences Building | Rm 3019
1007 W. Harrison St. | Chicago, IL 60607
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