I had a quick question about registering 4D data to 3D data. I am trying to register a dsc nifti file to a t1 post contrast. In actuality I am registering the dsc data to a t2 that has been already registered to the t1+C because this usually gives better results. However, because I am using a 3D image as the reference, I am losing the 4th dimension of my dsc data. In effect only 1 timepoint is being registered to the structural image. I’m not sure how to go about fixing this. I have included the function I applied and the change in the nifti header matrix that occurs during the transformation. The two datasets have already been skull stripped.
align_epi_anat.py -dset1 dsc_strip.nii.gz -dset2 t2_strip_post.nii.gz -dset1to2 -dset1_strip None -dset2_strip None -suffix _post
Preregistration dsc nifti header
Postregistration dsc nifti header
Any help would be greatly appreciated! Thank you so much!