Dear FreeSurfers,
I've run some fixed and random effects analyses in Talairach space and would
like to constrain the output of mri_volcluster to areas within the brain
(e.g., not the eyeballs). How do I create a brainmask that is the same
dimensions as the input volume I pass to mri_volcluster? Without a mask, I'm
currently getting stats on extra-brain voxels that I do not want, and I
can't use the Talairach brainmask.mgz file b/c it doesn't match my input
volume.
Any help would be appreciated.
Dan Dillon
PS. The command I'm currently running, sans mask, is as follows:
mri_volcluster --in LowTrauma/bold/LowTraumaSPMHRF/tal-ffx/Rcue_v_Ncue/sig
--in_type bfloat --reg LowTrauma/bold/LowTraumaSPMHRF/tal-ffx/register.dat
--thmin 3 --minsizevox 12
