Hmm I see, but I guess the voxel size will be different since the EPI might have lower resolution than the T1, no?
Also this will be done only on a subject-to-subject basis, it's just for individualized targeting approaches.
Here is the command
3dAllineate -base ${anat} -input ${maskdir}/MNI152_2009_template.nii -prefix ${wdir}/MNIinNative_formatrix -1Dmatrix_save transformation_matrix
and then:
3dAllineate -base ${anat} -input ${maskdir}/language_comprehension_fromNeuroSynth.nii -prefix ${wdir}/WernickeinNative -1Dmatrix_apply ${wdir}/transformation_matrix.aff12.1D
