Dear AFNI team,
I am doing registration between EPI images and its T1. The registration is almost perfect in all subject except in one (73 of 74 subjects). I would like to attach the code that I am using to perform the registration.
align_epi_anat.py -anat T1 \
-epi EPI \
-epi_base BASE_VOLUME \
-epi2anat \
-suffix _pre.nii \
-anat_has_skull no \
-epi_strip 3dAutomask \
-volreg off -tshift off -deoblique off \
-master_epi T1 \
-cost lpc
I put tshift and volreg in 'off' because I already did those step in a preprocessing pipeline.
What could be a possible cause for a bad registration? I would also like to attach a jpeg of the subject who has the registration problem.
Thanks in advance,
Karel
