This NSF CPS project aims to develop new techniques for modeling cyber-physical systems that will address fundamental challenges associated with scale and complexity in modern engineering. The project will transform human interaction with complex cyber-physical and engineered systems, including critical infrastructure such as interconnected energy networks. This will be achieved through a novel combination of data-driven techniques and physics-based approaches to give mathematical and computational models that are at once abstract enough to be understood by humans making key engineering decisions and precise enough to make quantitative predictions. The intellectual merits of the project include a novel confluence of emerging data science and model-analysis methods, including manifold learning and information geometry. The broader impacts of the project include the training of undergraduates, including those from underrepresented communities, several outreach activities, and publicly available open-source software.