The aim of this study was to map the cortical representation of seven resting lower-limb muscles involved in control of the knee joint (rectus femoris, vastus lateralis, vastus medialis, biceps femoris, semitendinosus, medial gastrocnemius, and lateral gastrocnemius) in healthy individuals. Cortical representation was quantified using size, centre of gravity, hotspot and number of discrete peaks. These measures were compared between muscles from the same group (quadricep, hamstring, plantar flexor) to evaluate the extent to which TMS can identify discrete cortical representation of lower-limb muscles. These data describe the characteristics of the cortical representation of lower-limb muscles in healthy individuals and provide a basis against which to evaluate reorganisation in clinical populations.