Delft3D Flexible Mesh (DFM) was used in 2D to compute hydrodynamics and sediment transport in the Mekong Delta. DFM is a process-based model which is solves the two- and three-dimensional shallow equations, based on the finite volume method (Kernkamp et al., 2011).The computational grid covers the entire Mekong Delta, from Kratie, Cambodia to East Sea shelf. It consists of a multi-dimensional grid which includes 1D and 2D combinations. The primary and secondary canals are represented in 1D networks while 2D cells are used for the Mekong River mainstreams, floodplains and shelf. The hydrodynamics results was calibrated and validated by (Thanh et al., 2019). The sediment model was calibrated against the measured data of suspended sediment concentration and fluxes during water year 2011.