Dear Lara,
The sh script implements a longitudinal segmentation algorithm that segments both time points simultaneously using a subject specific atlas, improving the reliability of the segmentation. You can read the details here
http://www.sciencedirect.com/science/article/pii/S1053811916303275
Cheers
Eugenio

Sent from my phone, please excuse brevity and typos

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Lara Foland-Ross <lfoland@stanford.edu>
Sent: Thursday, September 14, 2017 2:38:45 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] hippocampus subfields in longitudinal dataset
 
Hello Freesurfer experts,

I have a longitudinal data set already processed in the longitudinal pipeline of v5.3. I'd now like to use the hippocampus subfield commands available in 6.0.

I'm wondering whether I will arrive at the same result using either of the following two approaches:
1. run "recon-all -s ${subjTp} -hippocampal-subfields-T1" separately on the time1 and time 2 longitudinal scans
2. run longHippoSubfieldsT1.sh

Thanks in advance,
Lara



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