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This paper presents a deterministic algorithm for motion estimation in medical image sequences. We are describing the iterated conditional modes (ICM) algorithm adapted to solve the motion estimation problem in medical image sequences. The proposed algorithm ensures a trade-off between precision and computational time that is a good efficiency when compared to the stochastic algorithms. The results are compared in terms of precision and of computational time with those of other basic algorithms such as the basic block-matching algorithm or the Horn & Schunck algorithm. The results are illustrated on CT (computer tomography) and MRI (magnetically resonance imaging) medical image sequences.