Hello,
I have about 10 subjects that I am trying to obtain cortical segmentations. In some of the cases parts of the temporal lobes are not included in the segmentation due to low intensity (or RF bias).
I tried adding control points as described in the tutorial (http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/ControlPoints). The wm/pial boundaries are worse than before, excluding even more parts of wm, even where I placed the control points.
I added about 30-50 controls points mostly in low intensity wm strands that are not correctly segmented.
I was hoping someone may have some tips or hints on good placement of control points, besides the ones on the tutorial. Trial and error is suggested in the tutorial but considering the time it takes to re-run each subject, it is too time consuming.
Thanks in advance.
Deniz Ozgen.