1. A method of automatically generating a myocardial perfusion map from a sequence of magnetic resonance (MR) images, said method comprising the steps of: determining a region of interest (ROI) in a reference frame selected from a time series of myocardial perfusion MR image slices; registering each image slice in said time series of slices to the reference frame to obtain a series of registered ROIs; and using the series of registered ROIs to segment endo- and epi-cardial boundaries of a myocardium in the ROI.