First, look in the qdec output folder to determine the FWHM in the fwhm.dat file. Assuming the value is 10, you are looking at the left hemisphere, you used a positive tail, and the voxel-wise threshold was 1.3 (p<.05), then you would find the following file
$FREESURFER_HOME/average/mult-comp-cor/fsaverage/lh/cortex/fwhm10/pos/th13/mc-z.cdf
This will have 8 columns, but you will be interested in columns 2 and 4 (MaxClustBin and MaxClustCDF). The MaxClustCDF is the p-value for the given cluster size MaxClustBin. Eg, on line 25:
25 473.758087 0.021000 0.169000 0.045775 11.261296 0.002800 0.325000
indicates that the clustersize must be at least 473.758 to have a cluster p-value of .045775
clear?
doug
On 01/05/2016 08:35 PM, Tara Miskovich wrote:
Hello Freesurfer experts,
I need help me finding how to get the minimum number of vertices required to pass the cluster-corrected threshold with monte carlo simulations used in qdec for a surface based analysis?
This is per a reviewer request, but I cannot find anything on the wiki or in the mail archives on how to get this value.
Can someone please help me with this issue?
-- Thank you,
Tara
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