It is helpful to declare the baseline sample within the group (to be expanded).

Right click on the baseline sample and choose Set as group's sample control (baseline)

declare baseline

AutoGate will respond by noticing if a sample in other group has a similar treatment and thus asks this question

declare other sample

This sets the base line in both time groups as the sample with a value of “no allergen” (in this example) for the keyword treatment.

AutoGate responds by highlighting both samples in bold to indicate that they are base line sample.

highlight baseline