Re: [Freesurfer] control points - voxels in wm mask being ignored

Hi Elissa

the control point can still have an effect if the brainmask.mgz intensity is not 110. Please make sure that you aren't adding control points to gray matter though - that will mess everything up!

Bruce

On Wed, 25 Jun 2014, Elissa McIntosh wrote:

Hello freesurfer experts,

I have a question. I think some of the gray matter is being underestimated and some white matter isn't being classified in particular areas. I went to add control points and I noticed that sometimes the places I want to put control points in have voxels there in the wm.mgz mask. What does it mean when this happens? Should I still add control points or leave it alone? I've attached an example.

Thank you!