A computer assisted orthopedic surgery system for ligament graft reconstruction includes a system for obtaining data indicative of a location for ligament graft placement with respect to at least a first bone and a second bone. The system includes a position determining device that is capable of tracking the relative movements of the first and second bones using reference bodies that are attached to the first and second bones and a pointer that has a tip for contacting a surface of at least one of the first and second bones to capture one or more reference points. The system further includes a computer that is configured to determine and track intraoperative positions of the reference bodies and the pointer and to provide isometric and impingement data for a ligament graft placement based on a realistic simulation of a trajectory of a deformable ligament graft.