Pairwise batch correction in Monocle3

Question

[elb]

Hi guys, I would like to build trajectories of my single cell RNA-Seq data using Monocle3. Before it I would like to perform batch correction with the function align_cds. I have three conditions: "untreated", "stimulationA" and "stimulationB". Is there a way to align pairwise "untreated"-"stimulationA" and "untreated"-"stimulationB" but not "stimulationA"-"stimulationB" in Monocle3? If I give labels (i.e. groups) to the function, also "stimulationA" and "stimulationB" cells will be corrected between them. I would like to avoid to perform the two analysis independently because I would like to plot results on a single figure. Thank you in advance