Hi,
Some other potential explanations for poor surfaces in this area are
addressed here:
https://surfer.nmr.mgh.harvard.edu/fswiki/UserContributions/FAQ#Q.Thesurfacesnearthemedialwall.2Chippocampus.2Candamygdalaaren.27taccuratelyfollowingthestructuresthere.HowcanIfixthis.3F
"This region tends to be furthest away from the coils receiving the MR
signal, potentially late to myelinate in individuals under 20 years old,
very thin white matter in general, and is in close proximity to regions of
susceptibility."
I'm not aware of any flags which could begin to fix the surfaces in those
areas automatically.
-Louis
On Wed, 2 Nov 2011, Freesurfer Local Archive wrote:
Michael,
I had a similar problem with about 10% of pediatric datasets I used.
In my case the problem also often included anterior and ventral
surface of the frontal lobes. Much like you I looked at possible
explanations and a medical physicist and a radiologist I worked with
blamed inaccuracies entirely on chemical shift. Adding control points
at least in temporal lobes generally provided only moderate
improvements.
Greetings,
Jacek
On Wed, Nov 2, 2011 at 4:02 PM, Michael Harms <mha...@conte.wustl.edu> wrote:
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
--
Michael Harms, Ph.D.
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