Hi Dr. Greve,
I am using following commands:
recon-all -all -subject S01 -i T1w_S01.nii -qcache mris_preproc --fsgd MEQ.fsgd --target fsaverage --hemi lh --meas area --out lh.MEQ_area.mgh mri_surf2surf --hemi lh --s fsaverage --sval lh.MEQ_area.mgh --fwhm 10 --cortex --tval lh.MEQ_area.10.mgh mri_glmfit --y lh.MEQ_area.10.mgh --fsgd MEQ.fsgd dods --C Corr-MEQ-cor.mtx --surf fsaverage lh --cortex --glmdir lh.MEQ_area.glmdir mri_glmfit-sim --glmdir lh.MEQ_area.glmdir --cache 1.3 neg --cwp 0.05 --2spaces mri_glmfit-sim --glmdir lh.MEQ_area.glmdir --cache 1.3 pos --cwp 0.05 --2spaces Thanks.
On Mon, Mar 6, 2017 at 2:00 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
I think you might be doing something wrong during preprocessing. Can you send your command lines?
On 03/06/2017 12:11 PM, Martin Juneja wrote:
Hello experts,
I am trying to correlate cortical surface area measure with behavioral measures using instructions from here: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis
After I overlay pcc.mgh (partial correlations) and sig.mgh files on lh.inflated, I see some clusters with high PCC values (Destrieux atlas) (please see attached figure) at "unlabeled subcortical regions" for one of the behavioral measures, out of 4.
Although for volume and thickness versus any behavioral measures, I do not see any "unlabeled subcortical regions" clusters like this.
Could you please advise me if its normal to get these clusters? If so, how can I interpret that?
Or Am I doing something wrong during preprocessing? If so, any help to find out where I might be doing wrong and to fix the issue would be really appreciated.
Thanks.
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