Methods and systems for calibrating an eye-brain interface (EBI) system controlled on the basis of eye movements and brain waves according to one embodiment of the present invention are disclosed. A method includes: providing an eye-brain calibration (EBC) interface for calibrating eye movements and brain waves simultaneously, wherein the EBC interface includes a visual object and instructs a user to gaze into the visual object in a particular cognitive state; acquiring eye movements and brain waves of the user for the visual object included in the EBC interface; mapping the visual object and eye movements of the user; and mapping the particular cognitive state instructed to the user and brain waves of the user.