An endo-robot can be tracked and a reconstructed 3D volume of data can be created for virtual endoscopy. The 3D position and orientation of each image captured by the endo-robot is determined. The longitudinal distance traveled inside the structure of interest is determined. The position, orientation and longitudinal distance are used to register the position of the endo-robot to a corresponding position inside the 3D volume of data. Virtual endoscopy can be used to locate areas of interest and correlate clinical findings with the images of the areas of interest.