The invention discloses a method for taking three-dimensional animation pictures, and a three-dimensional animation picture taking device is utilized in the method. The object end of the device comprises a support, a suspension bracket and a dial, and a machine frame at the taking end of the device is provided with a guide groove in which a camera can be placed and slide. When the three-dimensional animation picture shooting device is used for shooting, the suspension bracket is rotated to enable a pointer to align with one scale line of the dial, the scale line is marked as the initial position, the suspension bracket is stopped rotating, the camera is slid leftwards or rightwards to make contact with a positioning device at one end to carry out shooting, and then the camera is slid to a positioning device at the other end to carry out shooting; the suspension bracket is rotated to enable the pointer to align with the next adjacent scale line of the dial, and shooting is carried out; shooting is carried out in sequence according to the method until the suspension bracket arrives at the scale line before the initial position of the dial. The three-dimensional animation pictures can be accurately and truly taken through the method, operation is easy, convenient and accurate, and the method is especially suitable for shooting soft objects and irregularly-shaped objects such as human tissue and organ samples. The invention further provides an application of the method on human tissue and organ shooting.