In a medical image processing apparatus according to an embodiment, an image inverting unit generates a first inverted image obtained by inverting a first medical image in a left-and-right direction of an examined subject and generates a second inverted image obtained by inverting a second medical image that is different from the first medical image in the left-and-right direction of the examined subject. A displacement detecting unit detects a displacement between the first medical image and the first inverted image. A registration unit generates, based on the displacement detected by the displacement detecting unit, a corrected image obtained by correcting the second medical image or a corrected inverted image obtained by correcting the second inverted image. A difference image generating unit generates a difference image between the second inverted image and the corrected image or a difference image between the second medical image and the corrected inverted image.