This paper proposes an automated control system which is necessary for Lab-on-chip (LOC) applications. The control system consists of two subsystems. The first subsystem is the signal generator which is required to generate four out-of-phase signals with phases 0°, 90°, 180° and 270°. The signal generator is based on two Analog Devices AD9851 Direct Digital Synthesizers (DDS). The second subsystem of the system is the data acquisition system which is needed to acquire the output signals from the LOC. The data acquisition subsystem is implemented using Saleae Logic Pro 8. The signal generator provides a bandwidth of 5 MHz with four perfectly synced sinusoidal signals. The data acquisition also provides the same bandwidth with sampling rate of 50 MS/s. The control interface for the complete signal is implemented using National Instruments LabVIEW software which automates the whole system and facilitate further processing on the output signals.