Objective To measure the cost efficiency, technical efficiency and allocation efficiency of each clinical ward of a tertiary hospital, so as to provide reference for realizing its high-quality development and fine management.Methods CCR, BCC and COST-DEA models in data envelopment method were used to measure the relevant efficiency values of clinical wards in the tertiary hospital.Results In 2019, the average cost efficiency of each clinical ward of the tertiary hospital was 0.675, the average allocation efficiency was 0.782, the average technical efficiency was 0.853, the average pure technical efficiency was 0.902 , and the average scale efficiency was 0.944; 7 (13.73%) clinical wards were in the state of increasing returns to scale, 23 (45.10%) clinical wards were in the state of unchanged returns to scale, and 21 (41.17%) clinical wards were in the state of decreasing returns to scale.Conclusion The cost efficiency of clinical wards in the tertiary hospital is mainly affected by the allocation efficiency, which requires reasonable allocation of medical resources. Most clinical wards need to improve the internal fine management level to increase output.