Paper Files – Data and Code Repository for Oyster Castle Experiments (Hydrodynamics, Sediment Transport, and 3D Roughness)

This repository contains the complete “Paper Files” folder submitted alongside the manuscript on oyster castles as a nature-based coastal protection strategy. The folder includes hydrodynamics, suspended sediment concentration (SSC), and bed shear stress datasets, along with the Python codes required to visualize and reproduce the figures.Contents:Hydrodynamics: Phase-averaged velocity fields (u, w), Reynolds stresses (u′w′), and turbulent kinetic energy (TKE), provided as .npz files.Suspended Sediment Concentration (SSC): Bundled .npz + memmap sidecars, plus quick-view (videos) tools for SSC evolution.Bed Shear Stresses: Extracted maximum shear stress distributions for bare vs populated and low vs high energy cases.3D Roughness Scan: Preprocessed oyster surface point cloud (.npz) with a replotting function to generate top/side-view panels.Supplementary Materials:PowerPoint file (“PowerPoint Graphs.pptx”): Plots and figures assembled for submission.Excel spreadsheet:Sheet 1 – Offshore summary table of wave and turbulence parameters.Sheet 2 – Froude scaling of the experiments.Python Utilities:_hydrodynamics.py – Hydrodynamics quick viewer._ssc_evolution.py – SSC overlays._shear_stresses.py – Bed shear stress comparison plots._load_npz_from_zip.py, _load_ssc_evolution_zip.py, _load_stress_from_zip.py – Tools for working directly from the compressed archive._load_3D_scan.py – Visualization of 3D oyster surface roughness scans.driver script.py – One-stop driver script (demo) to reproduce figures across modules.All files along with README text file are kept inside the “Paper Files” folder, which is uploaded here as a complete dataset. Reviewers and readers can run the provided demo script to review all results without manual unpacking.