Pathogenesis of many diseases is associated with changes in the collagen spatial structure. Traditionally, the 3D structure of collagen in biological tissues is analyzed using histochemistry, immunohistochemistry, magnetic resonance imaging, and Xradiography. At present, multiphoton microscopy (MPM) is commonly used to study the structure of bio logical tissues. MPM has a high spatial resolution comparable to histological analysis and can be used for direct visualiza tion of collagen spatial structure. Because of a large volume of data accumulated due to the high spatial resolution of MPM, special analytical methods should be used for identification of informative features in the images and quantitative evalua tion of relationship between these features and pathological processes resulting in the destruction of collagen structure. Here, we describe current approaches and achievements in the identification of informative features in the MPM images of collagen in biological tissues, as well as the development on this basis of algorithms for computeraided classification of col lagen structures using machine learning as a type of artificial intelligence methods.