afni.nimh.nih.gov

Hey Peter--

Still looking interpolation-y.

I ran:

3dAllineate -base anat_ns.nii -input t1_dyn_contrast_volreg_ave_zp_ns.nii -master t1_dyn_contrast_volreg_ave_zp_ns.nii \
-prefix t1_dyn_contrast_volreg_ave_zp_ns_al.nii -1Dmatrix_save t1_dyn_2_spgr.1D -cost mi -final wsinc5 -source_automask \ 
-autoweight -twopass -warp shift_rotate -verb -overwrite

where:
anat_ns.nii = high res whole-brain anatomical without skull
t1_dyn_contrast_volreg_ave_zp_ns.nii = low res T1, zeropadded, sans skull

Results represented in attached picture. You can see that the resolution has, indeed, been defined by the low-res T1 but we still get lots of interpolation (e.g., where the zero-pad area is not zero).

Advice appreciated.