The present disclosure relates to a method and system for registering multi-modality images. The method may include: acquiring a first image relating to a registration model, wherein the registration model includes a plurality of reference objects; acquiring a second image relating to the registration model; determining a set of reference points based on the plurality of reference objects; determining a set of mapping data corresponding to the set of reference points in the first image and the second image; and determining one or more registration parameters based on the set of mapping data.