Abstract: A method of placing a ligament graft in a surgical procedure is described. A surgical system receives kinematic information related to a range of motion of a knee joint and registers one or more surfaces of a bony anatomy of the knee joint. The surgical system further generates a three-dimensional model of the knee joint. The surgical system determines a surgical plan including parameters of a graft tunnel based on the kinematic information and the three-dimensional model. A graft tunnel planning system is also described. A plurality of tracking markers are affixed to the patient's bones and a tracking unit captures their location through a range of motion of the patient's knee joint. A point probe captures the geometry of a bony surface of the patient. A computing module receives the location data and geometry data, and determines a surgical plan including parameters of a graft tunnel.