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
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