Methods and systems for processing a set of images are described. In accordance with this disclosure, images are registered and an analysis is performed in view of one or more constraints (such as constraints based upon anatomical or physiological considerations). Weighting factors are determined based on the analysis. The weighting factors are used in subsequent processing of the registered (and/or unregistered) images and/or to formulate a visualization that conveys the degree of confidence in the motion estimation used in the registration process.