The threshold is a significance threshold, ie, -log10(p), so sig=2.3 -> p < 10^-2.3 = .005. This will not work for fsaverage5. You can try generating a new set of tables for fsaverage5 with mri_mcsim. doug
Xinian Zuo wrote:
Thank you, Doug! Found the CSD file. Just want to make sure that I picked up the correct one: mult-comp-cor/fsaverage/lh/cortex/fwhm08/abs/th23/mc-z.csd corresponding to a FWHM=8, voxel-wise z-thr=2.3, the sign is both pos and neg? Actually, the zstats were converted from pearson correlations, which I want to see both pos and neg relationships. Another point: is the CSD file designed for fsaverage specifically? I did analysis on fsaverage5, can I just use this file or have to resample the surface to fsaverage space?
Xi-Nian
On Tue, Dec 13, 2011 at 5:43 AM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
If you have a full-width half-max (FWHM) for your analysis, you can convert your z into a sig (-log10(p)*sign(z)), then run mri_surfcluster. You should give it a CSD file that corresponds to your FWHM, the sign of the contrast you are interested in, and the voxel-wise threshold. The CSD files are located here $FREESURFER_HOME/average/mult-comp-cor doug
Xinian Zuo wrote:
Hi List, I have a question on how to write out the matlab vector containing the Z-statistics and perform subsequent multiple corrections. I already read some functions and know how to write it to a mgh surface file. Here, my question is 'is there any specific things on the header of the surface file, which allows me to do cluster-wise correction (see corrected p-value < 0.025) if there is such a command for that?'. Thanks!
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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