For some reason I'd send the las e-mail unfinished, here's the complete one:
Dear Freesurfers
As recommended I'm calculating the cortical GM&WM vols from the surfaces.
Using the --excl-ctxgmwm to exclude the GM&WM volume from the segmentations and the --surf-ctx-vol and --surf-wm-vol to respectively compute the GM and WM surface volumes. The problem is that in the aseg.stats file the lines:
# surface-based-volume mm3 lh-cerebral-white-matter
# surface-based-volume mm3 lh-cerebral-cortex
# surface-based-volume mm3 rh-cerebral-white-matter
# surface-based-volume mm3 rh-cerebral-cortex
are not appearing,
I've checked with the volumes using "mris_volume -v lh/rh.pial" and "mris_wm_volume subjID lh/rh -v". Only the volumes from the mris_wm_volume coincide with the ones in the ones in the lines: # Measure lhCorticalWhiteMatter,.....,Left Hemisphere Cortical White Matter Volume, ,mm3 in both hemispheres but not the cortical GM volumes.
In fact for GM the volumes are:
aseg.stats lh=156531.224634 rh=153692.917345
mris_volue lh=436143.018321 rh=444925.772579
Which as you may see are completely different, the sum from the two from the aseg are not even close to a single from the mris_volume
Is there any way to know which volumes are correct?
and how can I calculate this to appear on my aseg.stats? or any other text file
Many Thanks in advanced,
Gabriel
Dear Freesurfers
As recommended I'm calculating the cortical GM&WM vols from the surfaces.
Using the --excl-ctxgmwm to exclude the GM&WM volume from the segmentations and the --surf-ctx-vol and --surf-wm-vol to respectively compute the GM and WM surface volumes. The problem is that in the aseg.stats file the lines:
# surface-based-volume mm3 lh-cerebral-white-matter
# surface-based-volume mm3 lh-cerebral-cortex
# surface-based-volume mm3 rh-cerebral-white-matter
# surface-based-volume mm3 rh-cerebral-cortex
are not appearing,
I've checked with the volumes using "mris_volume -v lh/rh.pial" and "mris_wm_volume subjID lh/rh -v". Only the volumes from the mris_wm_volume coincide with the ones in the ones in the lines: # Measure lhCorticalWhiteMatter,.....,Left Hemisphere Cortical White Matter Volume, ,mm3 in both hemispheres but not the cortical GM volumes.
In fact for GM the volumes are:
aseg.stats lh=156531.224634 rh=153692.917345
mris_volue lh=436143.018321 rh=444925.772579
Which as you may see are completely different, the sum from the two from the aseg are not even close to a single from the mris_volume
Is there any way to know which volumes are correct?
and how can I calculate this to appear on my aseg.stats? or any other text file
Many Thanks in advanced,
Gabriel
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