Ganguli has received numerous awards for his work in the field including a National Science Foundation CAREER Award, the Simons Investigator Award in MMLS, the McKnight Scholar Award, the James S. McDonnell Foundation Scholar Award in Human Cognition, a Sloan Research Fellowship, a Swartz Fellowship, the Burroughs Wellcome Career Award at the Scientific Interface, and the Terman Award. His publications have also won a number of conference awards, such as the NIPS 2014 Outstanding Paper award and the Cosyne 2014 award for the top ranked abstract. Finally, Ganguli has won a number of awards unrelated to his academic publications, such as the Berkeley Outstanding Graduate Instructor award and the National Council of Teachers of English Award in Writing.