Hi Susan, I've updated that web page to demonstrate how to run the random effects analysis. Let me know if that is clear or not. doug
On 08/23/2012 12:38 PM, Susan Alice McLaughlin wrote: > Hi, > > I'm resending this e-mail, as it didn't seem to go through correctly > yesterday: > > I’m a Freesurfer novice, and I’m confused about how to run a 3rd level > cross-subject analysis on the surface using as input cross-run .gfeats from > 10 subjects generated from a 2nd level analysis in FSL. > > Following the directions posted at > http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/FslGroupFeat, I have > sampled the .gfeat copes and varcopes into standard surface space, using > mris_preproc. > > I would then go on to perform a 3rd level surface based analysis as the > instructions suggest, using: > > mri_glmfit --y xrun/lh.cope1.mgh --yffxvar xrun/lh.varcope1.mgh --ffxdof 163 > --osgm --glmdir xrun/lh.osgm.ffx --surf fsaverage lh --label > $SUBJECTS_DIR/fsaverage/label/lh.cortex.label > > However, I want to use a random as opposed to fixed effects analysis. How do > I do this? I tried --yrfxvar as opposed to --yffxvar but it didn’t work. And > if I’m going to display the map resulting from this analysis, do I need to > correct for multiple comparisons? > > Many thanks in advance, > > Susan McLaughlin > Doctoral Candidate > SPACE Lab (Stimulus-Parametric Imaging of Auditory Cortex) > Dept. of Speech and Hearing Sciences > University of Washington > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- 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 _______________________________________________ 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.
