Hi Yolanda, don't use thmax (it will exclude everything with a sig>7 -- not what you want I assume). That command otherwise looks right, but it won't correct for multiple comparisons. You can run mris_anatomical_stats on the output label to give you the stats you want.
doug
Yolanda Vives wrote:
------------------------------------------------------------------------Dear freesurfers,
I would like to obtain the cluster size (in mm3) and coordinates of the maxima of a cortical volume comparison using mri_surfcluster.
mri_surfcluster --in $PATH/control_cronic_dones_right_volume/rh-Diff-control-cronic-Intercept-volume/sig.mgh --hemi rh --subject fsaverage --thmin 2 --thmax 7 --sign pos --surf pial --no-adjust --o ./concro --ocn ./cluster_number --olab ./grouplabel_concro --sd $SUBJ_DIR --sum ./concro_sum
Would it be correct.
Regarding the results that I obtain, I have some questions:
- Which surface do I have to load? pial, orig?
- In the summary file, the cluster size is given in mm2, is it possible to obtain it in mm3 (I am analysing cortical volume)?
Thank you for your help,
Yolanda
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