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Dear Freesurfer experts,
I got the area of a cluster by two methods, and found the results were
inconstant.
Method 1: During group level analysis, the individual surface was normalized
to fsaverage. I exported the cluster area and label file by command
mri_surfcluster.
The command ws as followed:
mri_surfcluster --in ./sig.nii.gz --subject fsaverage --hemi lh --centroid
--annot aparc --thmin ${thp} --sign ${sigsignTemp} --no-adjust --minarea
${tharea} --sum area${tharea}.${sigsignTemp}${thp_infilename}.cluster.summary
--o area${tharea}.${sigsignTemp}${thp_infilename}.cluster.nii.gz --ocn
area${tharea}.${sigsignTemp}${thp_infilename}.ocn.nii.gz --olab
$Dir_Subj_fMRI/$out_dir_group/$analysis/$contrast/label_area${tharea}.${sigsignTemp}${thp_infilename}/label
Method 2: I calculated the cluster area using the label file outputed by
mri_surfcluster via the matlab funciton read_curv. I did this to test the
method for calculating the area of a label manually drawn by me.
1, I first got the area of each vertex by the command
area = read_curv('../fsaverage/surf/lh.area');
2, I red the IDs of vertices in the label file and added 1
3, I got area values of vertices in the label file and summed them.
I found the areas calculated by the Method2 were much smaller(except one ROI)
than the ones exported by mri_surfcluster as shown below.
Area from Method 1：
# ClusterNo Size(mm^2) NVtxs Annot
1 833.94 1999 postcentral
2 578.52 1300 precuneus
3 243.78 463 middletemporal
4 184.72 344 inferiorparietal
5 111.76 292 insula
Area from Method 2：
ClusterNumber Area(mm^2) NVtxs AnotomicalRegion
1637.39 1999 postcentral
2 480.44 1300 precuneus
3 140.37463 middletemporal
4 166.33344 inferiorparietal
5112.76292 insula
What's the reason? Where did I do wrong in the method 2?
Thanks.
Best,
zhiwei
--
-----------------------------------------------
Zhiwei Wang（王志伟), Associate Investigator
International Center for Primate Brain Research
Center for Excellence in Brain and Intelligence Technology
Institute of Neuroscience,Chinese Academy of Sciences
Room 215, Building #5, 500 Qiangye Road, Shanghai, 201602,China
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