Dear CONN community,

I am still trying to fully understand how gPPI task-based connectivity analyses work. While CONN's GUI instructions mention only including task conditions of interest when creating the gPPI model in the first level analyses, I do not understand the significance of including conditions of non-interest (that don't relate to a baseline condition) in the model or not.

To be specific, my event-related experiment has three conditions imported from SPM.mat files: task stimulus conditions (which are actually 4 different kinds of conditions that I merged into one for CONN), fixation, and instruction periods. My conditions of interest would be the stimulus conditions and fixation (as an explicit baseline). My question is whether I should include the "instruction period" condition in the gPPI model or not, and how I should properly interpret the different result I get if I include or exclude it.

Thank you,
Lillian