ok, still  pretty easy

mri_segstats --seg ocn.mgh --exclude 0 --i timepoint1.mgh --avgwf timepoint1.table.dat

where
ocn.mgh is something like cache.th13.abs.sig.ocn.mgh
timepoint1.mgh is the stack of timepoint 1 for all subjects
The output will be a table with subjects on the rows and clusters on the columns

On 6/16/2020 12:28 PM, miracle ozzoude wrote:

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Thanks Doug. 

I ran multiple comparisons to get the clusters. However, I want to extract the clusters values for the individual timepoints. The paired t-test does a paired-difference (timepoint1 - timepoint2) and I presume the significant clusters come from the difference image used in mri_glmfit. My goal is to extract the clusters values for each of the timepoints not paired-difference. This is a surface-based analysis. 

Best, 

Paul

On Tue, Jun 16, 2020 at 11:35 AM Douglas N. Greve <dgreve@mgh.harvard.edu> wrote:

did you run the correction for multiple comparisons to get your  clusters? If so, then there should be a table with a row for each subject and a column for each cluster.

On 6/16/2020 11:03 AM, miracle ozzoude wrote:

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Hello, 

I ran a pet longitudinal paired t-test analysis with 2 timepoints using mri_glmfit and I found significant clusters. I want to extract the values of these significant clusters for each timepoints. How do I go about doing this? 

Thank you. 

Best, 

Paul.

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