The port operation system is a complex with randomness，dynamics，lack of balance，and other complex characteristics. The emergence of multi-agent simulation modeling technology provides strong support for the simulation of the whole process of port operations，especially the research on the impact of LNG ships on navigation. Scientific and reasonable simulation results are mainly based on reliable basic data. On the basis of the Anylogic simulation modeling platform，this paper uses auxiliary means such as AIS for dynamic ship tracking and open ocean data to make the simulation more realistic. Using an engineering example，the paper carries out a multi-channelanalysis of navigation environment conditions，simulates the port operation environment，and studies the influence of LNG ships on the navigation and port service level. The results show that the simulation method is clear and easy to operate，which is helpful to the navigation impact analysis of similar projects.