nope, that shouldn't matter for the cortical models (if that is what you care about). Frequently brainstem is very far from isocenter and coil elements, and hence low SNR causing this to happen.
cheers Bruce On Fri, 25 Aug 2017, John Anderson wrote:
Dear FS experts, Attached is a snapshot for orig.mgz overlayed by wm.mgz for one of my recons which finished with no errors. I am reviwing the data and I see a lot of holes in the brain stem, Are these needs to be filled manually. Do you recommend to fill this type of holes or just the ones in the hemispheric white matter?
Thanks in advance John