Hi Sherri,
Control points are meant to normalize the intensity of white matter voxels to 110 and will not help if you are adding them in an area of wm.mgz where the intensity is already 110. If it's not working, you might want to make some edits in the wm.mgz i.e. adding/deleting white matter voxels depending on the problem. Please refer to our correcting topological defects wiki and white matter edits wiki for more info.
Sita.
On Mon, 28 Sep 2009, Sherri Novis wrote:
Hello -
My previous email was either lost in the shuffle or a bad q - pls let me know if it's the latter.
I am adding white matter control points, and rerunning autorecon-all - however the pial surfaces are not changing after I add CPs. I am adding them slice by slice. The log file shows the CPs are recognized. log file attached.
I can't find any info in the tutorials of archives as to exactly how CPs and pial surfaces interact.
Are there specific ways the CPs need to be added to force new pial boundaries? Or do they not not interact the way I think they do..
This is what I'm loading to edit CPs: tkmedit [SubjectID] brainmask.mgz lh.white -aux wm.mgz -aux-surface rh.white.
Thank you - Sherri