Thx Doug. I presume I can just make WM edits to the wm.mgz at periphery of the ventricle but how about caudate/lentiform edits (which I have never had to do) . Do I replace incorrect voxels with the correct
aseg labels (i.e. R caudate label 50) with the aseg being the Reference volume?
I’m using FS 6.0 Can I just run ‘recon-all –all’ again after all the edits?
Jim
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu>
On Behalf Of Douglas N. Greve
Sent: Monday, August 17, 2020 10:24 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] FS edits of subcortical parcels
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Copy aseg.auto.mgz to aseg.manedit.mgz, then edit aseg.manedit.mgz. If you are using v7, then you can run
recon-all -s subject -autorecon2-samseg -autorecon3
On 8/13/2020 5:35 PM, Alexopoulos, Dimitrios wrote:
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FS editing experts, I have a subject with enlarged ventricles and processed the subject with recon-all –bigventricles flag.
The surfaces look good but the subcortical segmentation and some WM around the ventricles , especially for the right hem, are poor.
Images below. What is the best approach to edit this segmentation? There are some WM edits required and some caudate, lentiform edits as well. Is the aseg or aseg+aparc edited?
Jim
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