> I preprocessed my data with AFNI_proc.py and plan to run a PPI. However, I don't believe
> I had the cbucket file saved. I am guessing I need that file to run 3dsynthesize?
You may have to rerun the regression analysis with option -cbucket.
> running 3dsynthesize, do I subtract the regressors of no interest from the concatenated file
> (e.g., all_runs.subject+tlrc) or do this from each run separately (e.g., pb04.subject.r01.scale+tlrc)?
For this specific step, you can do the subtraction with all the runs concatenated.
> If I run it on the concatenated file, do I need to break up the runs for any of the remaining
> steps? It seems that with the following steps on the website, separating them may not be
> necessary anymore?
If you decide to run deconvolution with 3dTfitter, do it for each run separately.
Gang
