Dear all,
I want to register the mean diffusivity to a template, using the parameters obtained from the previous registration of the FA to the same template.
I do this:
flirt -in subject_MD -ref template -init subject_FA_affine.mat -out reg_L_subject -cost mutualinfo -dof 12 -v
fnirt --in=subject_MD --ref=template --refmask=mask_template --applyrefmask=mask_template --aff=subject_FA_affine.mat --cout=subject_warp.nii --fout=subject_fout.nii --logout=subject.log -v
applywarp -i subject_MD -r template -w subject_warp.nii -m mask_template -o reg_NL_subject
subject_FA_affine.mat is the affine transformation obtained from the FA
Is this correct? or I should use the warp file obtained from the previous FA registration?
Any help will be grateful.
Best regards,
Manuel Blesa
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