Sorry, for the delay...
1. You can use mri_surfcluster with the --fdr option.
2. I'm not sure I understand. Are you really setting the FDR to .88? Usually it is some thing like .05
doug
On 02/10/2014 03:28 PM, pfotiad@nmr.mgh.harvard.edu wrote:
Hi FS community,
I was wondering if anyone had a chance to give this a look.
Thanks in advance, Panos
Hi FS community,
I am doing a cortical thickness comparison between a diseased and a healthy group. After running the mri_glmfit command for both hemispheres, I project the uncorrected significance map and there are a number of significant clusters showing (if you consider the p value to be at most 0.05). However, instead of using the clusterwise Correction for Multiple Comparisons, I wanted to use FDR to see what the results would look like, and I had a few questions regarding the whole process:
- Are Tksurfer and QDEC the only tools in FS that I can apply the FDR
correction
with, or are there any other ways?
- In Tksurfer, I tried using the "Set Threshold Using FDR" tool, and when
I set the rate from 0.88 to 0.87 it bumps up the minimum threshold from 1.37 to 3.24 hence resulting in no significant clusters for rates less than 0.88. Does that sound normal?
Thanks in advance! Panos _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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