Mplex is a semi automated software for evaluation of multiplexed bead assays in flow cytometry. It is particularly useful for cytokine evaluation and can be used with a variety of currently available commercial multiplex kits. It can also be used for lab-designed kits using a combination of beads. Examples shows include kits from BiolegendTM (2 size beads, up to 7 bead intensity levels for 13 plex) and MilliplexTM bead assays kits based on standard LuminexTM beads. MPLEX can easily handle both 96 well and 384 well bead assays.