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Objective To achieve the accuracy measurement by using the human-computer natural technique of the somatosensory capture device Kinect and to provide reference for the application prospect of the human-computer natural interaction in biomedical engineering (BME) field. Methods In this experiment, Kinect is used to locate the space coordinates and compared with the NDI motion capture system. The position is located at each measurement point both by Kinect and NDI. The relative displacement is adopted to assess the accuracy of Kinect while the data from NDI is used as a valid approximation of the real data. Results In the software and hard ware testing platform we constructed, the error is (0.0283±0.0186) m, and the root-mean-square error (RMS) is 0.0303m. These data are collected over a range of 51.49 degrees. Conclusions The accuracy and stability of Kinect are both in centimeter degree. It is acceptable in certain BME applications like rehabilitation training and the control of the operating room devices. The accuracy and stability need to be improved in other fields with higher requests, like the control of operating room robots.