Hi,
I have some troubles when using the FAST segmentation algorithm. If I overlay the original image
and one of the resulting masks there is a left-right orientation mismatch between these two images.
Checking the header information (fslhd) doesn't show any orientation differences between the
images. They're both anatomical and the orientation of x-y-z is the same (L-R,P-A,I-S).
Fslview shows the correct orientation labels for the original image and I am sure, that it's orientation
is ok. Only the resulting segmentation mask after FAST is wrong.
At the moment I'm handling this problem by reorienting the mask using fslswapdim before masking
the original image with fslmaths. But in my opinion this is not an optimal solution.
Maybe you have an idea, where the problem could be.
Thanks,
Corina
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