Hi,
I'm trying to register a FA DTI to a T1 image so I did
flirt -in FA.nii.gz -ref T1.nii.gz -out reg_img.nii.gz
However when I look at the reg_img.nii.gz and compare it to the T1.nii.gz, it seems as if the reg_img has not been moved at all, it seems that it has only been cropped (and resampled). The transformation matrix of the FA.nii.gz and reg_img.nii.gz images are identical though. Why has reg_img not been moved then? The registration between the FA.nii.gz and reg_img.nii.gz seems slightly off, so I wonder why flirt did not move the input image...
Thank you,
Ben
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