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The Computer Science and Engineering department spans multiple areas of research including algorithms, logic, and complexity; computer hardware, including architecture, VLSI (chip design), FPGAs, and design automation; computer security and privacy; cyber-physical systems; distributed systems; database systems; machine learning and artificial intelligence; natural language processing; networks; pervasive computing and human-computer interaction; programming languages; robotics; social computing; storage systems; and visual computing, including computer vision, visualization, and graphics.

In cooperation with other departments on campus, CSE also offers a strong research group in bioinformatics, computational biology, biomolecular engineering, and human genome mapping. The CSE department enjoys a close relationship with the Electrical and Computer Engineering, Applied Mathematics, and Statistics departments. Faculty members carry out joint research projects, supervise students, and teach courses for these departments. The M.S. degree requires either a master's thesis or an approved project and is usually completed in two years, although it is possible to complete the program in one year. The Ph.D. degree is usually completed in five years.