1. A method to compensate for respiratory motion in imaging of a subject anatomy, the method comprising: acquiring a first image of an internal region of interest of the subject anatomy; detecting an illustration of at least a portion of a plurality of instruments introduced into the subject anatomy in the first image; acquiring a second image of the internal region of interest of the subject anatomy; detecting an illustration in the second image of at least the portion of a plurality of instruments introduced into the subject anatomy; comparing and calculating a displacement in the illustrations of at least the portion of the plurality of instruments between the first image and the second image, calculating one of an average or median displacement of at least the portion of the plurality of instruments between the first and second images, and applying one of the average and the median displacement to adjust at least a portion of one of the following: the acquired image data of the first or second images or a pre-acquired three-dimensional model of the internal region of interest, wherein the applying step creates a display compensated for respiratory motion of the internal region of interest.