Abstract: According to the demand of for sample "homogenization" in flow cytometer, a sample pre-processing system of flow cytometer based on microfluidic cell sorting technology has been developed. The device can realize the driving and sorting of cells or particles with a particle size less than 100 μm. The system mainly consists of two parts: a microfluidic sorting chip and a sample driving module. By focusing on different positions, it achieves effective separation of cells or particles of different particle sizes. The system does not need to label the cells, and the sorted cells are easy to be detected by a flow cytometer. After verification, the system can effectively remove large particle impurities from oyster blood lymphocyte samples, improving the stability and uniformity of cell samples, and increasing the accuracy of detection results of the flow cytometer.