It is possible but not easy. You'll have to start almost from scratch. Motion correct your time series. Then run mri_vol2surf to sample the time series on the surface (use nifti output). Smooth on the surface. Run FEAT using this as the input. Turn off spatial smoothing and prewhitening and masking (and anything else that might assume a volume structure). Tell it to save the residual error (can't remember how to do this). When you get that far, write back.

doug

On 08/14/2014 09:31 AM, Milde, Christopher wrote:

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

Sincerelyyours,

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;

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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

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