Hello,
I would like to use Freesurfer a surface / segmentation for processing in AFNI. I have run @SUMA_Make_Spec_FS.
I first want to use aseg.nii to create masks to regress out wm and ventricle signal. However, aseg.nii does not align with the T1 or epi AFNI datasets.
I have tried @SUMA_AlignToExperime -exp_anat <T1+orig created with to3d> -surf_anat <aseg.nii> -prefix <prefix> -align_centers -final NN
Should -surf_anat be aseg.nii or surfvol? I have tried both but it doesn't seem to matter.
I have also tried 3dAllineate, and align_pi_anat.py and it doesn't seem to be making a difference.
Thanks!
Dustin
Edited 1 time(s). Last edit at 12/15/2014 10:39PM by dmoracze.
