There are no negative clusters in abs.

I tried to apply the permutation but it says it requires an orthogonal matrix.

Right now I am using this:

-1 1 0 0 

How would my orthogonal matrix look like?

Thanks,

Vale


From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu>
Sent: Thursday, February 14, 2019 12:14:27 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] GLM - correction for multiple comparisons
 
It is certainly possible. Are some of the clusters in abs negative?
Also, I would strongly recommend using permutation if you are using such
a low clusterwise threshold. See
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm
The monte carlo simulation is not valid at such low thresholds


On 2/14/19 11:50 AM, Barletta, Valeria wrote:
>
> Dear Freesurfers,
>
> I am performing a GLM analysis on two groups (patients versus
> controls) and one variable (age).
>
> We are using the following option to correct for multiple comparisons:
>
>
> mri_glmfit-sim --glmdir
> ${glm_dir}/${hemi}_contrast-${contrast}_${surfname_t1} --cache 1.3 pos/abs
>
>
> Is it normal to have those 2 different results when using pos or abs
> option? (see screenshots)
>
> Thank you!
>
> Vale
>
>
>
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> Freesurfer@nmr.mgh.harvard.edu
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