Re: [Freesurfer] pial edit question

2012-07-28 Thread Bruce Fischl
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 -

[Freesurfer] pial edit question

2012-07-27 Thread Cat Chong
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