Dear Doug, thanks for your helpful comments according to the reading out fMRI cluster peak vertices!
Actually, I'm able now to read out cluster peak vertices (see bottom). I applied the mri_surfcluster command for resampled and surface smoothed Feat stats on smoothwm surface with projfrac 0.5 (mri_surf2surf -fwhm). But I'm not sure how to apply Multiple Comparison Correction because I only found this option for group statistics (mri_glmfit-sim). For this purpose, I have to generate a GLM within Freesurfer. I use FEAT preprocessed but unsmoothed data and coregistered/resampled it to the surfaces. My goal is to read out peak vertices on session/single-subject level, preferentially on the smoothwm with -projfrac 0.5. Is it possible to use the mkanalysis-sess/mkcontrast-sess/selxvavg3-sess commands (seemingly it’s just for FSFAST preprocessed data) in combination with a Multiple Comparisons Correction at session level? OR Shall I run the Preprocessing in FSFAST too? Hopefully, there is a solution for this delicate problem Sincerely yours, Chris mri_surfcluster --subject PM_00880_inflation --surf smoothwm --hemi lh --in PM_00880_inflation/TR.feat/stats/smooth_10.mgz --thmin 2 --thmax inf --sign pos --minarea 30 --annot aparc --sum PM_00880_inflation/TR.feat/stats/TR_summary2 thsign = pos, id = 1 version $Id: mri_surfcluster.c,v 1.51.2.3 2012/05/31 22:10:05 greve Exp $ hemi = lh srcid = PM_00880_inflation/TR.feat/stats/smooth_10.mgz srcsubjid = PM_00880_inflation srcsurf = smoothwm srcframe = 0 thsign = pos thmin = 2 thmax = inf fdr = -1 minarea = 30 xfmfile = talairach.xfm nth = -1 sumfile = PM_00880_inflation/TR.feat/stats/TR_summary2 subjectsdir = /home/christopher/Desktop/freesurfer/subjects FixMNI = 1 ------------- XFM matrix (RAS2RAS) --------------- /home/christopher/Desktop/freesurfer/subjects/PM_00880_inflation/mri/transforms/talairach.xfm 1.052 0.044 -0.055 0.749; -0.027 1.026 0.319 -8.121; 0.030 -0.345 1.096 -13.593; 0.000 0.000 0.000 1.000; ---------------------------------------------------- Reading source surface /home/christopher/Desktop/freesurfer/subjects/PM_00880_inflation/surf/lh.smoothwm Done reading source surface Reading annotation /home/christopher/Desktop/freesurfer/subjects/PM_00880_inflation/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Computing metric properties Loading source values number of voxels in search space = 133455 Done loading source values (nvtxs = 133455) overall max = 5.55723 at vertex 63001 overall min = -4.84855 at vertex 19315 surface nvertices 133455 surface area 79513.531250 surface area 79513.859375 Adjusting threshold for 1-tailed test. If the input is not a -log10(p) volume, re-run with --no-adjust. Searching for Clusters ... thmin=2.000000 (1.698970), thmax=inf (inf), thsignid=1, minarea=30.000000 Found 9 clusters Max cluster size 1315.766113 INFO: fixing MNI talairach coordinates _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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