Hello,
I have a set of DICOMs which I could not convert to anything useful with
dcm2nii but which I did convert to NIFTI with SPM instead. However, they
only look normal when opened in the SPM window, but they have a funny
orientation when displayed in FSLview, MRIcron.
I looked at the images and figured a "-90 deg roll" rotation in MRIcron
would fix the image, orientation-wise, which it did, but there still remains
the problem of the initially imported boundaries along the axes, which trim
skull & brain a bit...
I was wondering if anybody knew an easy fix to this problem (I know I could
also apply transformations at will with FLIRT in FSL, but I am not sure what
is considered the origin of the 3D affine space, so I would have to work
harder along this route with rotations, translations and a contraction to
adjust for the tight boundaries)
Thank you very much,
Silviu Podariu
UNMC, Omaha
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