In this paper, we propose a new pre-processing algorithm applied to depth map to improve the coding efficiency. Now, 3DV/FTV group in the MPEG is working for standard of 3DVC(3D video coding), but compression method for depth map images are not confirmed yet. In the proposed algorithm, after dividing the histogram distribution of a given depth map by EM clustering method based on GMM, we classify the depth map into several layered images. Then, we apply different mean shift filter to each classified image according to the existence of background or foreground in it. In other words, we try to maximize the coding efficiency while keeping the boundary of each object and taking average operation toward inner field of the boundary. The experiments are performed with many test images and the results show that the proposed algorithm achieves bits reduction of 19% ~ 20% and computation time is also reduced.