Is this just a visualization issue? What is your freeview command?
On 11/12/2024 3:55 AM, Koen Van Leemput wrote:
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Hi Jin,
To me it doesn't sound like a resolution issue: samseg will happily
"eat" whatever resolution you have in your images, although for
multicontrast data such as yours you'd need to resample all contrasts
to the image grid of one contrast (typically T1 since it's higher
resolution). I'm guessing top/bottom axial slices in the FLAIR were
simply not acquired?
Koen
On Mon, Oct 21, 2024 at 4:32 PM Jin Liu <jin....@stonybrook.edu> wrote:
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Hello Freesurfer team,
I tried to use SAMSEG-long to deal with my longitudinal data with
paired MPRAGE and FLAIR images. But when I checked the original
FLAIR images I have, I found that they have a voxel resolution of
1.333333 x 1.333333 x 2.000000. When I view it on Freeview,
although the axial view is fine, only a rectangular portion of the
sagittal and coronal brain is available, with the top and the
bottom cut off. I guess it’s probably due to resampling issue that
assumes isotropic voxels which we do not have. Is there any way to
fix this problem?
Best,
Jin
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