Libby, Use mri_glmfit-sim instead of mri_glmfit. https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis
If you use just mri_glmfit then you have to use mris_surfcluster to get CWP information from .csd file. pratap > hello, > > i am working through the group analysis and multiple comparisons > corrections tutorial using my own data. according to the tutorial, > after running this command: > > mri_glmfit --y lh.thickness.10.mgz --glmdir LH_MRT_agecovar.glmdir -- > fsgd matrixT_FSGD --surf fsaverage lh --fwhm 10 --C MRT_agecovar.mtz -- > sim mc-z 100 1.3 mc-z.negative --sim-sign neg > > i should find CSD files in the LH_MRT_agecovar.glmdir/csd directory. > my problem is that there is no /csd directory made as a result of the > command that i run. there are also no CSD files in the contrast > subdirectory. there is one CSD file (located at the same level as my > glmdir) called: > > mc-z.negative-MRT_agecovar.mtz.csd > > but this file does not contain any CWP information. > > i'm running version 4.1.0 on fedora 10 > > any help would be much appreciated. > > thanks! > libby > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
