Systems and methods for registering pre-operative medical images, such as computed tomography ("CT") images, to the coordinate space of an ultrasound treatment system are provided. The registration is generally based on minimizing distances between locations associated with an anatomical feature, as identified from the medical images, and spherical surfaces defined by time-of-flight measurements for ultrasound data acquired from the anatomical feature by transducer elements. The locations associated with the anatomical feature, which may be a skull of the subject, can be points or planar surfaces define on the anatomical feature. The registration methods described here can be useful for aberration correction and targeting using an array of high-frequency ultrasound elements. In combination with cavitation monitoring and control, this ultrasound-based registration of CT images could eliminate the need for MRI during these treatments.
