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 <gr...@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 > 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 > > > > 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. > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
