You can run mri_glmfit-sim on the QDEC output directory. Or you can run the simulation from within QDEC. Both will give you this output file. doug
Antonella Kis wrote:
Dear Doug,
I got this results while I was running the GLM simulation but I wonder if there is a way to get under QDEC (when I run QDEC from the interface) and I am using the FDR and Monte Carlo simulation. In this case I am not getting any output as in GLM from which I got the csdbase.y.ocn.dat. While using QDEC I can get the thickness on the graph which is one point in the cluster, not the mean of the cluster. Is there a way to change the cluster into binary data (I am not sure) and then extract the mean thickness of that cluster or how I can get under QDEC the average thickness of the clusters?
Many thanks, Antonella
*From:* Douglas N Greve greve@nmr.mgh.harvard.edu *To:* Antonella Kis atorok9@yahoo.com *Cc:* "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu *Sent:* Monday, September 26, 2011 10:23 AM *Subject:* Re: [Freesurfer] QDEC stats table output
Will this work (this is from running mri_glmfit-sim --help, which has even more info):
csdbase.y.ocn.dat - this is a summary of the input (y) over each cluster. It has a column for each cluster. Each row is a subject. The value is the average of the input (y) in each cluster. This is a simple text file.
Antonella Kis wrote:
Hi, After running QDEC, I would like to output in a table the average value for the cortical thickness within each clusters. I know this is a dependent variable and I can see the values on the plot but is there a way that I can get this values in a table ? Thanks, Antonella
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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