In an automated method of determining potential efficacy of immunotherapy approaches, an automated slide scanning system with an image acquisition unit is provided. A sample slide with a mounted tissue sample is received by the automated slide scanning system. One or more slide images of the tissue sample are acquired with the image acquisition unit. At least one cell segmentation process is executed on the slide image in order to identify tissue cells. The cells are analyzed with at least one cell classification algorithm in order to identify a tumor cell percent positivity value and an immune cell percent positivity value, and a treatment efficacy score is subsequently calculated. Further features provided include pixel to pixel image registration, reconstruction, composite multi-layer viewing, and other image management tools.