This study presents a thermodynamic analysis of biogas reforming and proton electrolyte membrane fuel cell (PEMFC) integrated process with different hydrogen purifications: conventional and membrane-based water gas shift processes. The aim is to determine the optimal reforming process for hydrogen production from biogas in the PEMFC system. The formation of carbon is concerned in the hydrogen production. The simulation results show that increases in the steam-to-methane ratio and reformer temperature can improve the hydrogen yield and reduce the carbon formation. From the performance analysis, it is found that when the PEMFC is operated at high temperature and fuel utilization, the overall system efficiency enhances. The performance of the PEMFC system with the installation of a water gas shift membrane unit in the hydrogen purification step is slightly increased, compared with a conventional process. (C) 2014 Elsevier Ltd. All rights reserved.