Hi Michael,
It might have something to do with low myelin content there in general (will make grey matter harder to tell from CSF) and late myelination (at least part of the anterior temporal cortex has its white matter myelinate quite late in development), which would reduce grey/white contrast.
As to what to do about it, I don't know.
Peace,
Matt.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Michael Harms Sent: Wednesday, November 02, 2011 4:02 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] anterior temporal lobe problems
Hi guys, We have a sample of 150+ pediatric brains that we pumped through FS 5.1, and in an easy majority of them the white/pial surface accuracy in the anterior temporal lobe is poor.
I know that this is an area where problems have frequently been reported. What is it about that area in particular that makes it difficult to get accurate surfaces? (Is the contrast and SNR in that area inherently worse?) And, short of a large time commitment of control point and wm.mgz editing, are there any flags/tweaks that we could attempt to fix the problem in a more automatic fashion?
thanks, -MH