yes
On 03/03/2016 01:06 PM, John Anderson wrote:
This si Great!!! Thanks Doug. One more question: What is the correct input in the command mri_surfcluster. Is it the image "sig.mgh" ?
Bests, John *Sent:* Thursday, March 03, 2016 at 12:47 PM *From:* "Douglas N Greve" greve@nmr.mgh.harvard.edu *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Qdec-statistical map You will have to extract clusters (mri_surfcluster) to create an annotation, then use mri_segstats with the --annot option and specifying the y.mgh file as input and the output using something like --avgwf output.txt (also add --exludeid 0). The output will have a row for each frame in y.mgh (ie, each subject) and a column for each cluster
On 03/03/2016 12:43 PM, John Anderson wrote:
Hi Doug, How can I use this statistical map ( e.g. as a mask) to calculate the mean cortical thickness only in the areas of significant differnce between the groups for every subject? Bests, John *Sent:* Thursday, March 03, 2016 at 12:37 PM *From:* "Douglas N Greve" greve@nmr.mgh.harvard.edu *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Qdec-statistical map not sure what you mean. the statistical map will have a single value, not a value for each subject
On 03/03/2016 12:31 PM, John Anderson wrote:
Dear FS experts, I am using Qdec to study the differnce in cortical thicnkess between two groups. Qdec is running a GLM analysis. This will output a statistical map (sig.mgh) for the differnce between the groups in cortical thicnkess. How can I extract the numbers of cortical thickness for every subject (depending on the order of subjects in Qdec table) from this statistical map ? Bests, John
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