Hi,
I noticed that when applying the same align_epi_anat.py command to different data sets, sometimes there is a transformation file writen with suffix like _e2a_only_mat.aff12.1D, sometimes it is _mat.aff12.1D. The prefix is usually the name of the anatomic data.
I think they are the ones used when warping the anatomic data to match epi data with 3dAllineate -1Dmatrix_apply. But I am just curious what is the difference between the one with e2a_only and the one without. Thanks!
Mingbo