The present invention relates to a system (10, 100) for handling slides, including an input compartment (14) for inputting racks (16) and the slides held therein, and a coverslipper module (30, 32) for coverslipping slides. The system (10, 100) further includes an output compartment (22) for outputting racks (16), a transport unit (20) for transporting the racks (16), and a control unit (52) for controlling the transport unit (20). The transport unit (20) is designed to be capable of transporting the racks (16) between the input compartment (14), the coverslipper module (30, 32) and the output compartment (22).