Hi Nicholas,
In such situations, I have learned that autorecon2-wm after adding WM voxels seems to work pretty well. Hope that helps.
Best Wishes, Elijah
On 27 September 2017 at 16:46:43, Nicholas Goh (ngoh95@gmail.com) wrote:
Bruce,
Thank you for the response. Attempting to use this method has not produced results, and I am unsure how to proceed or if I had performed it improperly. I have attached an example of the control points being placed, if that helps any. Thank you,
Nicholas Goh
On Wed, Sep 27, 2017 at 11:04 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi Nicholas
yes, possibly, depending on why you are missing chunks. If the white matter in the regions you are missing has intensity values significantly < 110 then what you are doing should help. The control.dat file must be place in the subject/tmp dir for us to find it.
cheers Bruce On Wed, 27 Sep 2017, Nicholas Goh wrote:
I am attempting to fix the aparc+aseg.mgz file for an image, and wanted to check to see if I am doing it correctly.What I was doing which seemed to be ineffective was 1)create a new point set of control points labelled control.dat 2)place control points along what should be white matter 3)save point set 4)run recon-all -autorecon2-cp -autorecon3 -subjid XXXX
Is this the correct way to go about fixing aparc+aseg files that are missing chunks of the brain? Is there a better way to go about this? Thanks for the help,
Nicholas Goh
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