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The physical roughness (canopies) formed by organisms within aquatic ecosystems (e.g., seagrass, kelp, and mangroves) modifies the local wave‐driven hydrodynamics within coastal and estuarine regions. In wave‐dominated environments, an understanding of the mean wave‐driven flows generated within and above canopies is important, as it governs material transport (e.g., of nutrients, sediment, and biota). However, until recently the effect of submerged canopies on wave‐current interactions and the resulting mean (wave‐averaged) flow dynamics has received relatively little attention. In this study, a combination of wave flume experiments and numerical modeling is used to investigate the wave‐induced mean flow profiles in the presence of a submerged canopy. The measured velocities and vegetation forces were used to derive bulk drag and inertia coefficients, and to validate a nonhydrostatic 2DV wave‐flow model. The numerical model results were used to conduct an in‐depth analysis of the mean horizontal momentum terms responsible for driving the mean (horizontal) flow within and above the submerged canopies. We show that the mean canopy hydrodynamics are driven by vertical gradients in wave and turbulent Reynolds stresses, balanced by the mean canopy drag forces. The wave Reynolds stress gradient is the dominant force driving the in‐canopy mean flow and is directly related to the vorticity that is generated when the wave orbital motions become rotational near the canopy interface. This study provides new insight in the mechanisms responsible for wave‐driven mean flows within submerged canopies and guidance for how these hydrodynamics can be predicted in coastal wave‐circulation models. Plain Language Summary: Aquatic plants that grow in estuaries and coastal oceans (such as seagrass, kelp, and mangroves) have a considerable influence on water flow (currents) and on waves propagating toward the shore. However, mean flows generated by the waves interacting with aquatic vegetation (with time scales much longer than the individual wave periods) have not been comprehensively studied. This study provides a description of how submerged vegetation alters the mean wave‐driven flow structure. A combination of detailed experiments conducted in a wave flume and numerical simulations are used to show that the mean flow just above the vegetation is relatively strong (up to 20% to 50% of the maximum wave velocity above the canopy), while it is considerably weaker inside the vegetation. We identified three forces that govern the mean current profile: the wave Reynolds stress gradient, the turbulent Reynolds stress gradient, and the vegetation drag force. These forces are usually not accurately described in larger‐scale computer simulations of coastal processes. However, reliable simulation of processes in the coastal ocean such as sediment transport and nutrient exchange requires an accurate prediction of mean flows, and thus these forces need to be properly incorporated in computer models when applied to regions with aquatic vegetation. Key Points: Physical and numerical modeling is used to investigate the wave‐induced mean flow profiles in the presence of submerged vegetationThe multilayered phase‐resolving wave‐ flow model was able to accurately reproduce the depth variation of the wave‐driven mean flow profilesWave‐driven mean flows inside vegetation canopies are driven by vertical gradients in the wave and turbulent Reynolds stresses [ABSTRACT FROM AUTHOR]

SUMMARY The open-source CFD library OpenFoam® contains a method for solving free surface Newtonian flows using the Reynolds averaged Navier-Stokes equations coupled with a volume of fluid method. In this paper, it is demonstrated how this has been extended with a generic wave generation and absorption method termed 'wave relaxation zones', on which a detailed account is given. The ability to use OpenFoam for the modelling of waves is demonstrated using two benchmark test cases, which show the ability to model wave propagation and wave breaking. Furthermore, the reflection coefficient from outlet relaxation zones is considered for a range of parameters. The toolbox is implemented in C++, and the flexibility in deriving new relaxation methods and implementing new wave theories along with other shapes of the relaxation zone is outlined. Subsequent to the publication of this paper, the toolbox has been made freely available through the OpenFoam-Extend Community. Copyright © 2011 John Wiley & Sons, Ltd. [ABSTRACT FROM AUTHOR]

This study aims at developing a new set of equations of mean motion in the presence of surface waves, which is practically applicable from deep water to the coastal zone, estuaries, and outflow areas. The generalized Lagrangian mean (GLM) method is employed to derive a set of quasi-Eulerian mean three-dimensional equations of motion, where effects of the waves are included through source terms. The obtained equations are expressed to the second-order of wave amplitude. Whereas the classical Eulerian-mean equations of motion are only applicable below the wave trough, the new equations are valid until the mean water surface even in the presence of finite-amplitude surface waves. A two-dimensional numerical model (2DV model) is developed to validate the new set of equations of motion. The 2DV model passes the test of steady monochromatic waves propagating over a slope without dissipation (adiabatic condition). This is a primary test for equations of mean motion with a known analytical solution. In addition to this, experimental data for the interaction between random waves and a mean current in both non-breaking and breaking waves are employed to validate the 2DV model. As shown by this successful implementation and validation, the implementation of these equations in any 3D model code is straightforward and may be expected to provide consistent results from deep water to the surf zone, under both weak and strong ambient currents. [ABSTRACT FROM AUTHOR]