In this paper, we propose a novel 3D sine wave modeling (3D SinMod) approach to automatic analysis of 3D cardiac deformations. An accelerated 3D complementary spatial modulation of magnetization (CSPAMM) tagging technique was used to modulate the myocardial tissue and to acquire 3D MR data sets of the whole-heart including three orthog- onal tags within three breath-holds. Each tag set is able to assess the motion along a direction perpendicular to the tag lines. With the application of CSPAMM, the effect of tag fading encountered in SPAMM tagging due to T1 relaxation is mitigated and tag deformations can be visualized for the entire cardiac cycle, including diastolic phases. In the proposed approach, the environment around each voxel in the 3D volume is modeled as a moving sine wavefront with local frequency and amplitude. The biggest advantage of the proposed technique is that the entire framework, from data acquisition to data analysis is in the 3D domain, which permits quantification of both the in-plane and through-plane motion components. The accuracy and the effectiveness of the proposed method has been validated using both simulated and in vivo tag data.