A system and method for quantifying muscle and fat from abdominal image data. An input is configured to receive the abdominal image data from a CT imaging system. A non-transitive computer-readable storage medium having stored thereon instructions. A processor is configured to receive the abdominal image data and access the storage medium to execute instructions. The executed instructions perform automated segmentation of the abdominal image data into at least one of a subcutaneous fat compartment, a muscle compartment, or a visceral fat compartment. One or more of the compartments are compared to a predetermined threshold to identify corresponding boundaries thereof. An area of one or more of the compartments is calculated based on the corresponding boundaries and predetermined threshold. A display is coupled to the processor and configured to display the at least one subcutaneous fat compartment, muscle compartment, or visceral fat compartment on the abdominal image data.
