Methods are disclosed for (A) adjusting the physical, spatial orientation of an immobilized subject in a multi-modal imaging system so as substantially to reproduce or match the physical, spatial orientation of a reference subject, wherein the reference subject is either (a) the same or (b) a different subject, either (1) during a prior imaging session for a later imaging session, or, in the case where a plurality of subjects is imaged in one imaging session, (2) during a contemporaneous imaging session； and (B) adjusting the virtual, spatial orientation of an immobilized subject in a set of multi-modal images.
