Hi everyone,
I’m using Mrtrix3 to do the fixel-based analysis, and I want to register the wmfod_template.mif to the MNI. When I run this with my test dataset, which only contained 2 subjects of all, it went successfully, whereas, when I run the same commands with all my subjuects, something wrong happened, and I’ve searched in the FSL email list, I didn’t find anything helpful there.
The outcome template2mni.mat is full of nan, I was wondering what might cause this error?
Here is my command:
# extract the I=0
mrconvert wmfod_template.mif wmfod_template_bad_strides.nii.gz
mrconvert wmfod_template_bad_strides.nii.gz wmfod_template.nii.gz -strides -1,2,3,4
mrconvert wmfod_template.nii.gz I0image.nii.gz -coord 3 0
# register
flirt -ref MNI152_T1_1mm_brain.nii.gz -in I0image.nii.gz -omat template2mni.mat -dof 12
Any help would be greatly appreciated! Thanks in advance
Yuting