Thanks for your reply, Doug After inter-hemispheric registration onto fsaverage_sym using surfreg, I did not use mris_preproc in my analysis because of the following two reasons: (i) I thought I can't use "--meas" because the input is an arbitrary surface data. (ii) I don't want to use "--paired-diff" because I don't want the input "pruned" before taking the difference.
Instead, I took the following steps: (1) resample the data onto fsaverage_sym using mri_surf2surf (2) take the difference in each subject using fscalc $fscalc lh.lh_subj1.mgz -sub lh.rh_subj1.mgz --o lh.lh-rh_subj1.mgz (3) concatenate the subjects together $mri_concat lh-rh_subj1 lh-rh_subj2 .... --o (4) smooth (mris_fwhm) and analyze (mri_glmfit). Are these steps not good for mri_glmfit-sim? Best, Shige -----Original Message----- From: Douglas N Greve [mailto:gr...@nmr.mgh.harvard.edu] Sent: Thursday, December 06, 2012 11:59 AM To: Shigetoshi Takaya Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: mri_glmfit-sim for interhemispheric comparison Shige, it is looking for tables of cluster p-values (the csd files). When you followed the wiki instructions, did you tell it to use fsaverage_sym as the target subject? You must have used a subject called "average". doug On 12/06/2012 11:53 AM, Shigetoshi Takaya wrote: > > Hi Doug, > > I did surface-based inter-hemispheric comparison. > > I used an arbitrary surface data (.mgz) resampled from a volume data > (.nii), otherwise I follow the instruction. > > http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi > > I got a good result for mri_glmfit. But when I run mri_glmfit-sim, the > following error messeage popped up. > > ERROR: cannot find > > $FRESURFER_HOME/average/mult-comp-cor/fsaverage_sym/lh/cortex/fwhm00/a > bs/th20/mc-z.csd > > I did not find "fwhm00"anywhere in the downloaded file > "mult-comp-cor", although I found fwhm01-30 directories. Am I missing > somethine? > > Thank you very much in advance, > > Shige > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
