Welding process of automobile panels is a key process in the manufacturing of automobile body and its quality directly impact on the appearance and quality of automobile. The causes of dimensional deviation of welded assembly could be workpieces variation, assembly tooling variation, and welding distortion. As a major source of assembly deviation, dimensional variations of workpieces have important effects on the assembly quality of automobile body. In this paper, pre-stressing was used to reflect the workpieces’ variation and the node coupling method was used in the numerical simulation to predict the deformation of assembly caused by the welding process of automobile panels. And further the computation results were listed and compared with the measured ones.