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: s...@uw.edu _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
