|Subject: Re: [Freesurfer] lobar WM volumes
|
|use mri_segstats. You can look in subjid/scripts/recon-all.log for example
|command lines (look for the one with wmparc). The command will require a
|color table. The ones in the log file will use the default table, but this
will not
|have
there might be a less manual way of doing this.
Thanks,
Wil
|-Original Message-
|From: Douglas N Greve [mailto:gr...@nmr.mgh.harvard.edu]
|Sent: Thursday, April 05, 2012 8:30 AM
|To: Irwin, William
|Cc: freesurfer@nmr.mgh.harvard.edu
|Subject: Re: [Freesurfer] lobar WM volumes
|
|You don't
|Cc: freesurfer@nmr.mgh.harvard.edu
|Subject: Re: [Freesurfer] lobar WM volumes
|
|You don't need to do 2b if all you want are the lobar wm segmentations.
|2b should just copy the cortical labels into the new seg.
|
|mri_segstats --seg mri/newseg.mgz --sum stats/newseg.stats --pv
|mri
?).
Thanks for your help.
-Wil
|-Original Message-
|From: Douglas N Greve [mailto:gr...@nmr.mgh.harvard.edu]
|Sent: Monday, April 02, 2012 10:39 AM
|To: freesurfer@nmr.mgh.harvard.edu
|Subject: Re: [Freesurfer] lobar WM volumes
|
|use mri_segstats. You can look in subjid/scripts/recon
Dear all,
I need to obtain the white matter volume per lobe for a given numer of subjects.
I started by using the following:
mri_annotation2label --subject subjid --hemi rh --lobesStrict lobe
mri_aparc2aseg --s subjid --labelwm --annot lobe
and now I have a lobe+aseg.mgz file. How can I
Dear all,
I need to obtain the white matter volume per lobe for a given numer of subjects.
I started by using the following:
mri_annotation2label --subject subjid --hemi rh --lobesStrict lobe
mri_aparc2aseg --s subjid --labelwm --annot lobe
and now I have a lobe+aseg.mgz file. How can I
use mri_segstats. You can look in subjid/scripts/recon-all.log for
example command lines (look for the one with wmparc). The command will
require a color table. The ones in the log file will use the default
table, but this will not have the numbers/names of your lobar regions,
so you'll need
Hi Doug,
Thanks for your reply. However, I was not able to succeed. Can you
give me an extra help?
I created a new color table and I tried the following command:
mri_segstats --seg $SUBJECTS_DIR/Subjid/mri/lobe+aseg.mgz --pv
$SUBJECTS_DIR/Subjid/mri/norm.mgz --excludeid 0 --brain-vol-from-seg
