Flood and ebb channel are the important geomorphologic units and different hydrodynamic properties exist in these channels. Based on the analysis of particle size, clay and heavy mineral and magnetic features of the sediments in the flood and ebb channels of the Yangtze River Estuary, it is found that there are different sedimentary features in the flood and ebb channels. Particle sizes of the sediments in the flood channel are coarser than that in the ebb channel. Distribution and concentrations of clay minerals in the flood channel sediment are similar with those in the ebb channel due to the dual-direction currents. Concentration of heavy minerals in the ebb channel is higher than that in the flood channel because there is strong ebb tide current and similarly there are more ferromagnetic mineral in the ebb channel.