In deltas and estuaries throughout the world, a fluvial-to-tidal transition zone (FTTZ) exists where both the river discharge and the tidal motion drive the flow. It is unclear how bedform characteristics are impacted by changes in tidal flow strength, and how this is reflected in the hydraulic roughness. To understand bedform geometry and variability in the FTTZ and possible impacts on hydraulic roughness, we assess dune variability from multibeam bathymetric surveys, and we use a calibrated 2D hydrodynamic model (Delft3D-FM) of a sand-bedded lowland river (Fraser River, Canada). We focus on a period of low river discharge during which tidal impact is strong. We find that the fluvial-tidal to tidal regime change is not directly reflected in dune height, but local patterns of increasing and decreasing dune height are present. The calibrated model is able to predict local patterns of dune heights using tidally-averaged values of bed shear stress. However, the spatially variable dune morphology hampers local dune height predictions. The fluvial-to-tidal regime change is reflected in dune shape, where dunes have lower leeside angles and are more symmetrical in the tidal regime. Those tidal effects do not significantly impact the reach-scale roughness, and predicted dune roughness using dune height and length is similar to the dune roughness inferred from model calibration. Hydraulic model performance with a calibrated, constant roughness is not improved by implementing dune-derived bed roughness. Instead, large-scale river morphology may explain differences in model roughness and corresponding estimates from dune predictors.