Hi experts,
I am having trouble performing a Monte Carlo correction using mri_glmfit-sim.
My data were sampled to fsaverage and smoothed at fwhm 5, using mris_preproc. I then ran mri_glmfit on the data.
I want to do my analysis/correction only in auditory cortex (AC) so I did my own simulation in AC of each hemisphere using mri_mcsim (as per http://freesurfer.net/fswiki/BuildYourOwnMonteCarlo).
So far, so good.
But when I try to run:
mri_glmfit-sim --glmdir [my data dir]/cope7ACroi_rh.osgm.rfx/osgm --cache-label AC --grf 4 neg --cwpvalthresh 0.05 --2space
I get "fwhm: Undefined variable." I tried adding --fwhm-override 5, but it didn't help.
Any thoughts? Also, can you clarify which comparison neg vs pos will give me?
Thank you,
Susan McLaughlin, PhD Research Scientist Laboratory for Auditory Brain Sciences & Neuroengineering Institute for Learning & Brain Sciences (I-LABS) Portage Bay Bldg. Room 204 University of Washington, Box 357988 Seattle, WA 98195-7988
Ph: (206) 616-0102 Fx: (206) 221-6472 Cell: 206-850-8638 E-mail: smcl@uw.edu