Thanks Rick!

I probably can't use the pre-proc acf parameters anyway since we, in the end, want to use a group mask based on the mask_epi_anat mask from all subjects only including voxels that all share (i.e. the union mask) via

3dmask_tool -input mask_epi_anat.*+tlrc.HEAD -prefix mask_epi_anat -frac 1

Then we preform a separate script for 3dFWHMx. If we use the acf from the pre-proc then all the subject smoothness estimate will not be from the same mask as used in the final analysis.

Or is this unnecessarily picky? Perhaps the smoothness won't change that much so that it is OK that the brain areas included to get acf do not have to match exactly across the subjects to get the group acf parameters (which we average together for each parameter)?

Thanks!



Edited 2 time(s). Last edit at 02/04/2019 09:08AM by Robin.