Hi Catherine

this is an artifact of visualizing a slice through a 3D surface. There are no true bubbles allowed - it is definitely all one surface. When you see something that looks like a bubble, view it in another plane. I also wouldn't worry about small oddities in the inflated surface - it's mostly for visualization.

cheers Bruce

On Fri, 27 Jul 2012, Cat Chong wrote:

Dear Experts,

I am occasionally noticing some 'pinching' on the inflated brain surfaces around the temporal lobe pole. When I check the brainmask.mgz files, the raised areas are due to a 'bubble' of pial surface forming on top of pial surface. Upon checking white matter and grey matter boundaries, the pial surface should really not be separated as a "bubble", but should in fact be all one surface. What would you suggest would be the best way to fix this? The white matter seems to be fine. Best Regards, Catherine