Hi Ho-Joon
I'll cc Andre van der Kouwe who created the protocol. You generally need to
match bandwidth and readout direction to match distortions. The bandwidth
of the 3D FLAIR sequences if typically quite high, so for the T1 we
usually go to multiple echoes like MEMPRAGE. I don't think we typically do
fat-sat in the FLAIR, but I defer to Andre
cheers
Bruce
On Wed, 31 Oct 2018, Lee Ho Jun wrote:
External Email - Use Caution
Hello freesurfer users. I am a radiologist, who is trying to setup a protocol
for freesurfer
segmentation.
I came to know that with 3D T2 weighted images, or 3D FLAIR images, I can get
better surface
segmentations, and based on search of previous archives of the mailing list, I
found that 3D FLAIR
images may give better segmentations.
My question is that whether applying fat suppression will change the results,
since, fat suppression
tends to lead to signal dropouts in areas of high susceptibility changes, such
as near mastoid air
cells.
Also, I am a little confused about the bandwidth matched protocols, will
"matching" the bandwidths
suffice?
Best wishes,
Ho-Joon Lee.
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