Hi @Kelsey_Thompson,
I’m a bit confused as when I try to test on the deltas (I subtract baseline values for each subject and then only use “Treatment” as a fixed effect in the model) I get different results. Though perhaps that is due to other reasons.
If you look at the image attached, I’m confused as to how I get coefficients with the same directionality for opposite effects. For example, in the first plot, C. jejuni is higher at baseline in the treatment group and decreases with treatment, while V. atypica has the opposite slope and also has a positive coefficient. Since these “deltas” go in opposite directions, I don’t see how they could have the same directionality of significance with relation to placebo. Do you have any insight as to what could be going on here?
