I was wondering if anyone had any suggestions about best practices for using fmriprep + ICA-AROMA processed data for a PPI analysis?
I have already seen a few threads about using data and noise regressors generated by the fmriprep + ICA-AROMA pipeline but I haven’t found a definitive answer to my question. I think the main issue here relates to the CSF and WM regressors, which are particularly important for PPI. I understand that in fmriprep these are calculated pre-AROMA, hence using them on AROMA-processed data might re-introduce noise. On some of the forum discussions I’ve seen people suggesting re-extracting CSF and WM from the *space-MNI152NLin2009cAsym_desc-smoothAROMAnonaggr_bold.nii.gz file, however, since this image is already smoothed I believe extracting CSF and WM signals from it is not ideal.
I was considering following the suggestion presented here but I am not sure if that was suitable for a PPI analysis.
I would welcome any suggestions.