Dear FSL experts,
I found FLIRT does not work normally in some MPRAGE images. These images often include much range of spinal cord. When I remove the some spinal cord image using fslroi(smaller range of coordination Y), FLIRT become normal. But FNIRT(1mm) does not work normally.
My data is MPRAGE, voxel sieze 1*1*1m^3; first FLIRT to 2mm, then FNIRT to 2mm, and using applywarp to FNIRT to 1mm. Images of FNIRT_2mm looks like not bad, but FNIRT_1mm distort obviously.
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