Systems and methods for producing multi-dimensional tissue characterization images are described. By combining colorized MRI images composited from multiple gray tone MRI images, riffle stacks can be formed and combined to render multidimensional reconstruction of anatomical, physiological and pathological features. Biophysical parameters are therefore automatically segmented, characterized, tagged, mapped and otherwise labeled. In another embodiment, gray tone images are collected by acquiring orthogonally opposed pulse sequences, the images of which are color masked and uniquely rendered in three dimensions to obtain voxels in which the color is determined by the summative color masks applied to original gray tone pixels. This method can be embodied as specific applications designed for the brain, abdomen, breast, pelvis, musculoskeletal and other organs and biophysical systems to facilitate diagnosis, surgical planning and virtual exploration.