You still cannot use 3 levels. You will have to use the "manual" stream, ie, use mris_preproc, mri_surf2surf (smoothing), mri_glmfit, and mri_glmfit-sim. See the wiki for more info doug
On 01/14/2015 02:14 PM, Hirsch, Gabriella wrote: > Hello there, > > I am trying to run an analysis in qdec with 25 subjects, 1 factor > (diagnosis) with three levels (e.g control, diag1, diag2) in order to > compare cortical thickness in these diagnostic groups. I am coming > across two main errors; > > 1. The first one I get upon clicking "analyze" in the qdec GUI I get > the error: > > Error in Analyze: Couldn't open > /subject_directory/subject/surf/lh.thickness.fwhm10.fsaverage.mgz or > .mgh file. > > This makes sense since the subject in question did not have that file > in that path. Having googled the issue, one answer pointed out that I > may have needed to run > recon-all -s <subjid> -qcache > > However, when I run this, nothing happens and > thelh.thickness.fwhm10.fsaverage.mgzfile was not > created. > > 2. Secondly, I read on an old version of the wiki that qdec does not support > more than two levels in a factor. > Is this still the case? > > If this is not possible, can you suggest a freesurfer processing stream that > might suit this type of analysis? > > Thank you! > Gabriella > > > > _______________________________________________ > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 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.
