mri_surfcluster --in intercept/sig.nii.gz --hemi rh --sign abs --no-adjust --fdr 0.05 --minarea 5 --sum summaryfile --subject fsaverage --annot aparc produces only summary.txt mri_surfcluster --in intercept/sig.nii.gz --hemi rh --sign abs --no-adjust --fdr 0.05 --minarea 5 --sum summaryfile --subject fsaverage --annot aparc --vwsig vwsig.nii.gzERROR: need csd with --vwsig How can I obtain/visualize the correspective map to summary.txt? Thanks,
Stefano
----Messaggio originale----
Da: stdp82@virgilio.it
Data: 25-gen-2016 17.25
A: "Freesurfer support list"freesurfer@nmr.mgh.harvard.edu
Ogg: [Freesurfer] R: Re: FDR map: hide very little cluster
Please could you suggest me an example of command line.I'm trying from several day without results.Thank you very much. Stefano
----Messaggio originale----
Da: Douglas Greve greve@nmr.mgh.harvard.edu
Data: 25-gen-2016 17.10
A: freesurfer@nmr.mgh.harvard.edu
Ogg: Re: [Freesurfer] FDR map: hide very little cluster
Use the --minarea option to mri_surfcluster (not the CSD).
On 1/25/16 10:39 AM, stdp82@virgilio.it wrote:
Hi list, please, could you help me because from several days I'm trying to have a solution.I have performed a seed-based fcMRI analysis by FAST. After mri_glmfit, I have obtained a sig.nii.gz which contains uncorrected results.I have corrected by FDR using the graphical interface provided in tksurfur. The FDR corrected contains some very small areas (<5-10 voxels) which I would like to hide in order to present a more clear map. How is possible to do it?I have tried with mri_surfcluster. To have vwsig.nii.gz I should have a CSD file. But this file could be also produced when FDR correction is applied? I'm very confused. Thank you very much for your work. Kind regards. Stefano
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