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I am trying to calculate the cortical thickness of a volumetric ROI that I created that I have in subject space for every subject in my dataset. I was using https://secure-web.cisco.com/1SRB1kl1prYOxcV3133JRM9O5Bj21w9M9aZYfcod7MM5GHwsDfBpkAJGh0Rs610J3N7kmx2WIaftk4KvSgiCc24mytynSAJYbOtgdbThjndntDX62ycHQTnGr8XWqmgIlVYB94HendZy03fCZG5yog4ttjg6kDqoW7EMD3euPhVAH7RWYjLA4o21LgNH2gGJ8OiUAGmi9PDXP978HKFgSGmlgfGg_ZJWDmZ0AywDyaN3_J1mfdwUSoJGMkUKKRrSzZmQSwHFkS0pWWyNllEn3RWBzI56yvVh7FGRHcpVI7U_3QPzsgdfeYX5LRKxg_kwErt-McsKT97BlE8Lj5Yo9xQ/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FVolumeRoiCorticalThickness as a guide. Since, I already have the volumes in subject space. I did a modified pipeline and only did the following for each subject: 1. mri_vol2surf --mov /path/to/ROI5.nii --regheader --projfrac-max 0 1 0.1 --interp nearest --hemi lh --out lh.ROI5.mgh 2. mri_segstats --seg $SUBJECTS_DIR/subjid/surf/lh.ROI5.mgh --in lh.thickness --sum segstats-ROI5.txt Does this make sense? Also, separately, is the volume that is also computed in this method accurate? I noticed that the volume is always equal to the number of voxels, which I assume a voxel is equal to 1mm^3? However, when looking at aseg.stats these volumes have different values from their number of voxels. Thank you, Carlos
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