Hi Megha
looking at your images it's not clear to me where the gray/white boundary is. Do you think it should be further out? One thing you can try is (if the occipital white matter intensity in brain.mgz is <110) putting some control points in the interior of the white matter. Or as Matt suggests, higher resolution can help, but that may not be an option
cheers Bruce
On Tue, 10 Dec 2013, Megha K. wrote:
Dear Sir/Madam,
I am using freesurfer for 3T MRI analysis of visual cortical thickness in elderly patients with ophthalmic disease. We are having a bit of trouble with the accuracy of cortical segmentation in the visual cortex (namely the pericalcarine region) as the cortex is quite thin in our patients (compared to controls). You can see in the attached image that whilst there is smooth cortical segmentation in the peri-calcarine region, the cortex is not visible to the naked eye. If you have any ideas on improving accuracy, I would be very grateful.
Thanks Megha