I feel a bit silly asking this question but i want to make sure I am clear what CONN is doing regarding scrubbing volumes. My understanding is that it removes volumes that exceed a motion and/or BOLD signal threshold. Does CONN also enter the number of scrubbed volumes as a first-level regressor at the denoising step? So, volumes are both removed and then there is a regressor? I have also been regressing out ValidScans at the second-level to control for any group differences. If someone could clarify what is happening at the preprocessing and denoising steps, I would appreciate it.
Thanks
Amy