A system and method for spatial imaging and imaging spectroscopy system includes a sample holder for holding samples, an illumination system arranged to illuminate the samples, a wavelength isolation module configured to selectively isolate received illumination from the samples to a plurality wavelengths, a single matrix imaging device arranged to receive the isolated wavelengths from the wavelength isolation module through a single lens system, and a computing device configured to perform a spatial imaging and imaging spectroscopy process. The spatial imaging and imaging spectroscopy process includes acquiring image data corresponding to each of the isolated wavelengths, performing spatial imaging analysis based on the acquired image data, and performing imaging spectroscopy on the acquired image data.