In a method and system for use of a marker device in a fluoroscopy imaging system that is coupled with a navigation system, the navigation system is designed to determine a position of a patient, or of an instrument relative to the fluoroscopy system, with the use of a marker device that may be attached to the fluoroscopy system, and it is automatically detected whether the marker device is attached to the fluoroscopy system, and if so, information is automatically read out from the marker device, setting data are automatically determined depending on the information, and the fluoroscopy system is adjusted using the setting data such that an association between data acquired by the fluoroscopy system and data acquired by the navigation system is provided using the marker device attached to the fluoroscopy system.