This paper presents finite element models to assess the vibration performance of multi-layered timber structures assembled through compressed wood dowels. Starting from a solid model which is considered as a reference, a new methodology using a solid-beam approach for the dowels and a solid-shell approach for the layers is described. Kinematic assumptions are applied throughout the cross-section of the dowels and the thickness of layers, leading to a significant reduction of the number of variables. The models are assessed for the calculation of frequencies and mode shapes of multi-layered timber beams and timber panels. The efficiency of this approach, in terms of quality of results and model size, is highlighted.