Kassi Cole's interests focus on the evolution of behavioral, morphological and developmental processes among vertebrates, with a concentrated interest in reef fishes. Her research program currently encompasses all three. In the area of behavior, she is currently engaged in a broad-based study on the evolution of reproductive and sexual patterns in tropical marine fish taxa, in the context of behavioral, ecological and life history factors. Her morphological interests are centered on comparative gonad morphology among functionally hermaphroditic fish species, and the application of gonad characters to elucidate underlying phylogenetic relationships.

Kassi's developmental interests focus on larval development in marine fishes, particularly in the areas of skeletal and nervous system development. Presently, she is carrying out two focused studies, including: the effect of loading, through swimming action, on rates of ossification in newly metamorphosed fish larvae; and the effect of modeled microgravity, using a ground-based analogue, on the development of the skeletal and nervous systems in a small, mangrove fish, Rivulus marmoratus. In addition, Kassi is also carrying out a study of temporal patterns of larval fish community composition, a project that has been ongoing in Belize for three years.