Dear Erin, I would recommend taking the spreadsheet with the fine-grained volumes, and simply combine the volumes (columns) as follows: CA1 = CA1-head + CA1-body CA3 = CA3-head + CA3-body CA4 = CA4-head + CA4-body GC-ML-DG = GC-ML-DG -head + GC-ML-DG -body 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 Erin L Ratliff eratlif2@umd.edu Date: Thursday, March 13, 2025 at 11:16 AM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Hippocampal Subfield Hierarchies
External Email - Use Caution Hi FS experts,
We are running the segmentHA_T2.sh script, and we get the .mgz files for the 3 hierarchies (CA, FS60, and HBT), but when we run either concatenatesubregions or asegstats2table, we get the fine grain hippocampal subfield volumes. Is it possible to extract the volumes (as .txt) from the hierarchy .mgz files? We are interested in using the CA hierarchy, and we are not sure how to calculate this with the output we receive from either concatenatesubregions/asegstats2table.
Any help is appreciated! Erin