Freesurfer experts,
I am having problems generating a corrected wm boundary after editing the wm.mgz volume. After control points were placed and ran with the command autorecon2-cp, I noticed that the yellow line became overzealous and included gm in some of the slices. To fix this I followed the tutorial “fixing Non-white matter classified as white matter”. I fixed all the slices that had the problem in a certain area. However, after running autorecon2-wm and autorecon3 the edits to the wm.mgz volume remain and yellow line does not change....i.e. The edits that were made remained, but had absolutely no effect on the wm boundary. I am using version 5.0.
I have included some screen shots of a certain area that was targeted correction. These shots are taken after the data was ran through autorecon2-wm and autorecon3.
Any suggestions of what I'm doing wrong would be very appreciated.
Thanks Chuck
