The modern simulation and analysis technology with the predominance of celerity, intuition and reappearance, and has been successful introduced into research of traditional timber structure protection.Aiming at five key research subjects of traditional timber structure protection, which includes simulation of connective behavior of mortise-tenon joints, simulation of configuration and mechanical character of Dou-Gong(bracket set), modeling and analysis of timber truss, modeling and analysis of Yingxian timber pagoda, and digital and information technology for timber structure, this paper introduced the main results of computer simulation and analysis technology application, and discussed the future trend to deepen this research.