The need for accurate nucleic acid testing is increasing with the spread of the global pandemic. Problems such as low efficiency and precision and large volume exist because the number of existing digital polymerase chain reaction (PCR) testing instrument channels is low. In order to solve these problems, a four channel micro drop digital PCR system was designed. The collimating lens set and objective lens of the LED light source are designed in ZEMAX software, and the entire optical path is simulated. It is verified that the light energy utilization rate of the system is over 93% and that stray light interference is marginal.