The invention discloses an information system management method based on a knowledge graph. According to the method, multi-source heterogeneous data such as technical documents, test analysis reports,operation log data and user feedback generated in design and actual operation of an enterprise informatization system are utilized, entities and relations in the data are extracted by comprehensivelyutilizing iteration rules and a machine learning algorithm, and a knowledge graph of the enterprise information system is constructed. On the basis of the extracted triple data, logic rules and machine learning are combined to realize relationship reasoning of the knowledge graph, a hidden relationship of an enterprise internal information system is mined, existing knowledge graph data is supplemented and perfected, and finally, a webpage is designed by utilizing a B/S mode to visually display the knowledge graph of the enterprise internal information system. The knowledge graph visually andcomprehensively displays the composition structure of each information system of the enterprise, helps enterprise decision makers and technical management personnel to macroscopically master the interaction relationship of the internal information systems of the enterprise, and promotes healthier and more stable development of internal informatization construction of the enterprise.