Dear FSL users and experts,
I am planning to use PALM to analyze data from an experiment with two groups, each scanned at two timepoints. After extensive reading in this mailing list I think I understand most of how I need to build my design, but there are a couple of points I'm not entirely sure on and would appreciate input.
As mentioned, I have 2 groups (subjects and controls) scanned at two timepoints (before and after an intervention). I would like to look at (a) the time effect across groups (what changed in both groups over time), (b) the group*time interaction effect (find where there is a decrease in one group but not the other). For both of those I assume a design based on the design_ekaterina file would work.
here are the few things I'm not sure about:
1) I would also like to examine the difference between the groups at the first timepoint only. As far as I can see, I can do this by running PALM two different times, once with my entire dataset and once with the scans from timepoint 0 only (is that correct?). the question is whether there is a design that allows me to include this contrast in the same run?
2) I have a few subjects with only one scan (in timepoint 0). do I need to exclude them from the dataset, or will the algorithm be able to use them for the group effects without it affecting the time and interaction effects?
3) I also have a few other measures (main among them are age and gender) that I would like to add to the model as confounds (that is, regress them out, seeing as the groups are not homogenous). is there a way to incorporate that into the design?
Thank you for your help!
Ronnie
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