This paper addresses the color medical imaging system (CMIS) program, which entails the development of a prototype system to evaluate spatial correlation techniques to convert microscopic images into full color digital electronic files. Program objectives were directed toward the creation of high resolution 2D images using spatial template matching. Full color image segments were captured using NTSC CCD array cameras. These lower resolution segments were captured in an overlapping coverage and combined at their borders as complete seamless high resolution files. The use of segmented capture overcomes the resolution limitation of the capture system, and expands the field of view of the microscope for a fixed magnification. CMIS was used to capture image segments from medical glass slide specimens using a light microscope, and to convert these segments into full color electronic image files. This paper describes the CMIS system and its image capture and conversion process.