Actually, that file won't be there either because it does not get
created until all processing is done (not just autorecon1). You can run
mri_segststats like
mri_segstats --seg subject/mri/aseg.presurf.mgz --ctab-default --sum
subject/stats/aseg.presurf.stats
Then add up all the segmentations you want to get BrainSegNotVent
On 8/23/2020 11:42 AM, Douglas N. Greve wrote:
Are you using v7? If so, look in subject/stats/brainvol.stats
On 8/22/2020 5:39 PM, Harkey, Thomas Jarrott wrote:
External Email - Use Caution
Hello,
I am a student learning free surfer. I was able to obtain
intracranial volume by running
recon-all –i file.dcm –subject bert –autorecon1
and then
mri_segstats --subject bert --etiv-only
How can I obtain the BrainSegNotVent volume? I have tried
mri_segstats --subject bert --brain-vol-from-seg
however, “ERROR: must specify a segmentation volume”
Can this be calculated using the data from autorecon1, or do I need
to run -all? Which segmentation do I need to specify?
My contact information is below,
Thank you!
--
*Thomas Harkey **
University of Arkansas for Medical Sciences***
*College of Medicine, Class of 2022
501-553-6318*
*tjhar...@uams.edu <mailto:tjhar...@uams.edu>*
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