Dear Doug I’ve tried runnig the command:
mri_glmfit-sim --glmdir lh.fsgd_subj_gauss001 --sim mc-z 625 2.3013 mc-z.pos.3 --sim-sign pos
And the following error appears: "ERROR: desig matrix is not orthogonal, cannot be used with permutation."
As I’ve search in the forum list, I have found that the --sim perm option does not work with continuous variables, but that --sim mc-z does, which are the differences between this two methods?
Bests, Rafa.
2011/1/26 Douglas N Greve greve@nmr.mgh.harvard.edu:
For the permutation sim, the fwhm should be set to 0. Why are you not using mri_glmfit-sim? I would strongly recommend it as that will make sure that all the arguments are correct.
doug
Rafa x wrote:
Dear Freesurfers, In Freesurfer v5.0 when I try to run the command:
mri_glmfit --surf CNTRL_MCI_RAFA_average lh --C contrast.mat --fsgd fsgd.txt dods --mask lh.fsgd_subj/mask.mgh --y CNTRL_MCI_RAFA_stats/lh.fsgd_subj.mgh --sim perm 625 2.301 csd1 --sim-sign pos --seed 6555731749
I always get the following error:
ERROR: you must supply --fwhm with --sim, even if it is 0
Is there a bug in the mri_glmfit function?
Thank you all in advance, Rafael. _______________________________________________ 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 greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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