Hi Rick,
Thank you for the very helpful reply. So I am attempting to do resting state example #11 in afni proc py. I am not as well versed in Freesurfer so bare with me. I am having some trouble finding the freesurfer file names listed in the afni example. I am using the latest Freesurfer and it did say it ran without error at the terminal.
So, for the FT_Surf_Vol.nii, is the anat that is aligned to Freesurfer masks. I am assuming in my case that this would be the ${subject}.fs file that it made, in the same directory where the original spgr file was. Now for the, aparc.a2009s+aseg_rank.nii file. I do not have one that has an "_rank". Is it okay to use the un ranked version?
Thanks,
Emily
