The paper discusses the features of the structural classification data analysis methods and algorithms implementation and practical application for the analysis and synthesis of weakly formalized
management systems. Including the methods: structuring parameters; the objects classification
(clustering); the time series dynamic structural classification analysis; the complex nonlinear
dynamic object models piecewise approximation. These features were used to create software-
algorithmic complex (SAC) with smart interface, user-centered of a subject. In developing
this complex, special attention was paid to problems in which the studied objects have a pronounced
territorial structure. Developed SAC was used to solve a wide class of applied problems,
including the study of biomedical, social, economic and financial systems; in the management
problems of the regional health-care systems and specific medical institutions, regional
passenger transport, etc.