A dispersive atomic fluorescence spectrometer based on a UV digital micromirror device (UV-DMD-AFS) has been proposed by our team for attenuating spectral and scattering interferences. Software is nontrivial for the automation of component control and sample analysis in the new instrument. In this work, the software was developed using the C# programming language together with multi-threading and combined with the SQLite database, which consists of component control and data acquisition, database, wavelength initialization, and real-time interference reduction module. To realize the accurate analysis of the trace heavy metal concentration, the spectral interference was avoided by measuring the non-interference wavelength, and the scattering interference was eliminated by the real-time proportional coefficient method. The microsecond rotation speed of the DMD is the key to achieving real-time reduction. The concentration of arsenic in Water Quality (GSB 07-3171-2014) was detected to validate the practicability of the software with the concentration deviation of 0.02 ng/mL.