Thank you for your kind suggestions. I reprocessed the subject and this time I'm sure about the control points. However when I added the control points to the left hemisphere, the right hemisphere surface was changed severely. I used the command line, recon-all -autorecon2-cp -s subjectID. Could you tell me why does it occur and how to deal with it?
Best,
EK
2012/9/25 Bruce Fischl fischl@nmr.mgh.harvard.edu
Hi EK
make sure that you don't have any control points in any voxels that contain any GM. It looks like maybe you do in the region where you drew a red arrow, although it's impossible to tell for sure from those images.
cheers Bruce
On Tue, 25 Sep 2012, EK Kim wrote:
Dear all expert,
Hello, I have been trying to solve this WM/GM boundary error. The data I attached here have a lots of problems, especially WM/GM boundary was not detected in temporal areas. Using mri_cnr function, I calculated the gray/white CNR of the norm.mgz.
------------------------------**--- norm.mgz
white = 97.3+-10.3, gray = 77.3+-14.8, csf = 55.6+-19.5 gray/white CNR = 1.222, gray/csf CNR = 0.790 lh CNR = 1.006
white = 97.0+-11.2, gray = 76.9+-15.1, csf = 55.9+-19.3 gray/white CNR = 1.139, gray/csf CNR = 0.737 rh CNR = 0.938 total CNR = 0.972 ------------------------------**----
- Does the low CNR affect the bad tissue segmentation results?
How can I solve the problem? Is there a way to improve the low CNR value?
- How can I delete the continuous areas, indicated by red arrow (axial,
134)?
I use freesurfer-Darwin-leopard-**i686-stable-pub-v5.1.0.
Thank you for any comments or replies in advance.
Best,
EK
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