We have a multi session study where we want to align the EPIs from session2 to the anatomical from session 1. I tried to use align_epi_anat.py with the epi2anat option to do this. For the anat I used the anatomical from session 1. When I do this, it doesnt seem to work very well.
Can align epi anat be used for very large translations. For example, our anatomical from session 1 might be nowhere close to the functionals from session 2, and it seems like the program doesnt make the large movement required to align the 2.