Thanks.I have obtained: $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ cwd cmdline mri_segstats --seg z.nii.gz --annot Control21_FS rh aparc --i z.nii.gz --sum summaryfile sysname Darwin hostname iMac-di-Stefano.local machine x86_64 user Stefano UseRobust 0 Loading z.nii.gz Loading z.nii.gz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 22 segmentations Computing statistics for each segmentation 0 -7 2 2.000 1 -6 110 110.000 2 -5 255 255.000 3 -4 518 518.000 4 -3 1190 1190.000 5 -2 1692 1692.000 6 -1 4104 4104.000 7 0 61577 61577.000 8 1 42598 42598.000 9 2 28146 28146.000 10 3 14859 14859.000 11 4 5845 5845.000 12 5 1899 1899.000 13 6 485 485.000 14 7 116 116.000 15 8 75 75.000 16 9 74 74.000 17 10 78 78.000 18 11 65 65.000 19 12 104 104.000 20 13 45 45.000 21 14 5 5.000 How I can know the meaning of this number? Where is z? I have tried also with:mri_segstats --seg z.nii.gz --annot Control_21 rh aparc --i z.nii.gz --sum summaryfile --mask .../fc.ramgseed.surf.rh/R_Amygdala/my-glm.wls/group.diff/cache.th13.neg.sig.masked.nii.gz --avgwfvol mrivol but I have problem with interpretation.
Stefano
----Messaggio originale----
Da: greve@nmr.mgh.harvard.edu
Data: 30-ott-2015 16.17
A: freesurfer@nmr.mgh.harvard.edu
Ogg: Re: [Freesurfer] average z-score of each subject from a common cluster
On 10/30/15 7:16 AM, stdp82@virgilio.it wrote:
Hi list, I have two queries, please.
I'd like to have the z-score from my rsfMRI data (seed-analyis).
1) I have extract the z-score from the Vtx Max
In details, after groups comparison analysis, I have opened the cache.th13.pos.sig.cluster.summary contained in group.diff folder and I have read the Vtx Max coordinates. Next, I have open the z.nii.gz of each subject and I have expected the z-score from the vertex which have the Vtx Max coordinates.
Is this procedure corrected?
Yes
2) z-score of each subject from a common cluster
I would like to use the cluster which shows the group difference (cache.th13.pos.sig.cluster.nii.gz) as ROI mask. Thus, I would extract from it the average of the z-score which is contained in each subject. How should I do?
Use mri_segstats passing the z map as the input (--i) and the cluster map as the seg. The output will be --sum. Run with --help for more info
Thanks.
Stefano
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer