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This paper presents the methodology of implementation and manipulations of a diffuse reflectance system for three dimensional images on Geranium leaves, two of the axes are for a two-dimensional scan performed with a programmable electromechanical subsystem. The third axis is derived from the amount of energy absorbed by the substances found in plants. The spectrum used is in the range of 380 nm to 680 nm (visible light) and as a reference for reflectance, light was projected on a barium sulfate (BaSO4) ceramic due to its high rate of diffusion of light radiation. This system allows observing certain substances or defects of the leaf that are in the opposite side where light is projected for the measurements. In turn, the system can select a single wavelength to distinguish the differences in uptake by substances that may have the Geranium leaf after the measurement. The system is currently being used in other types of biological tissues to identify different substances to be related.