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There is always much difficult in the MR image segmentation. Although fuzzy c-means(FCM) clustering algorithm has been widely used in the field of image segmentation study, some inherent deficiencies of this algorithm especially the high cost of computation made the algorithm to be difficult widely used in practice. A novel algorithm, based on kernel fuzzy c-means (KFCM) clustering algorithm and the k-nearest neighbor (KNN) algorithm, is proposed to improve the performance of MR image segmentation. In this algorithm, the statistical gray level histogram of image is used in KFCM algorithm to speed up the algorithm. Furthermore, the spatial information of image is also considered by k-nearest neighbor algorithm based on kernel methods. With kernel methods each pixel of image is mapped into a high-dimensional feature space where FCM algorithm and KNN algorithm are carried out. Experiments show that the proposed algorithm is effective and efficient in image segmentation.