Almost all drug compounds will elicit deleterious effects on cells at some concentration. Lysosome perturbation as a result of ion trapping of amine containing compounds has been demonstrated to cause the formation of autophagosomes and autophagic cytopathology. Here we describe the use of the EL406 Combination Washer Dispenser to automatically aspirate media, wash cells and dispense reagents for the Lyso-ID Red Detection kit, part of the CELLestial Live Cell Analysis platform from Enzo Life Sciences.