In this study, fuel cell systems in automobiles were modeled by ADVISOR, and those models were analyzed through making comparisons. Fuel cell systems are essential parts of vehicles. This, before constructing fuel cell systems in a vehicle, analyzing the coherence of the system with vehicle is important in terms of cost and security. ADVISOR which has been developed by National Renewable Energy Laboratory (NREL) facilitates making comparisons of those kind of systems. In this article, the utilization of the software was denoted by an example and through making comparisons of fuel cell types, and the obtained results were evaluated.