There is provided a system, apparatus and methods for developing laser systems that can create a precise predetermined capsulotomy. The systems, apparatus and methods further provide laser systems that reduce the patient-to-patient variability and doctor-to-doctor variability associated with hand held apparatus for performing capsulorhexis and capsulotomies. There is further provided a precise predetermined shot pattern and shaped capsulotomy that is based at least in part on the shape of an IOL and in particular an accommodating IOL.