How to assess the quality of research activities of a higher educational institution? The issue is urgent, difficult, and requires a systematic approach. We consider it based on the key research methods. And we evaluate the quality of planning and management of performance results on the example of scientific structural units of the university. There are various ways to evaluate quality. We chose the one where the integral indicator is used. The formula takes into account many factors: (a) the number and impact of the department’s scientific publications, (b) the volume and sources of research funding, (c) the development and implementation of innovative projects. Based on their significance and contribution to the overall productivity of the unit, an integral coefficient is considered. It will be a numerical measure of the quality level of the department’s work. We also offer a standard model for managing the results of scientific departments. The main thing that is required is a combination of strategic planning, clear allocation of resources, performance measurement, continuous improvement. In scientific work, it is important to be able to predict the timing of the implementation of innovative projects. The methodology proposed by us, covering the entire life cycle of the project, will help to calculate the required time correctly.