DOI: 10.5061/dryad.3ffbg79pd
title: Data from: Towards environmentally friendly finfish farming: A potential for mussel farms to compensate fish farm effluents

description: Aquaculture is seen as a possible solution to meet the rising demand for
 fish but only if the sector reduces its use of wild fish in feed as well
 as its environmental impacts. The cultivation of extractive species along
 with fish farming (the integrated multi-trophic aquaculture
 system, IMTA) has the potential to mitigate the adverse environmental
 effects of fish farming. The dynamic energy budget (DEB) modelling is a
 powerful tool to be used in different aquaculture settings to achieve the
 Blue Growth goals set by the commission. This study explored the potential
 of mussels for bioremediation at finfish farms to develop environmentally
 sustainable finfish farming solutions in the eutrophic Baltic Sea region.
 The study integrated the DEB models of blue mussels (Mytilus
 edulis/trossulus) and rainbow trout (Oncorhynchus mykiss) and a regional
 hydrodynamic-biogeochemical model to explore the potential of mussel
 farming to fully compensate for nutrient discharges from finfish farms.
 The DEB models demonstrated that despite suboptimal mussel growth
 conditions (low salinity), mussel farming has the potential to fully
 compensate for the discharge of nutrients from fish farms and thereby
 provide a solution for sustainable fish farming in the Baltic Sea region.
 As such, fish farming may become a necessary enabler of economically
 sustainable mussel farming in the region. Mussel farming facilitates
 finfish farming licensing whereas finfish farming covers some costs of
 mussel farming thereby increasing the economic feasibility of this
 activity in the region. 
description: # Data from: Towards environmentally friendly finfish farming: A potential
 for mussel farms to compensate fish farm effluents
 [https://doi.org/10.5061/dryad.3ffbg79pd](https://doi.org/10.5061/dryad.3ffbg79pd) ## Description of the data and file structure This is the R script and parameter files used to run the dynamic energy budget (DEB) models presented in the manuscript. As input data, the model requires environmental data (temperature, salinity, and chlorophyll in water), which are freely available from the Copernicus portal. **How to use these scripts:** 1. **Single-folder setup:** Place *all* files from the zipped archive (including scripts and parameter files) into a *single* folder. This same folder should also contain the environmental data downloaded from Copernicus or another source. 2. **Running the model:** In R, set your working directory to this folder and run **`run_only_this_script.R`**. 3. **Adjusting input parameters:** If needed, you can modify input parameters (e.g., model type, number of organisms, dates) at the beginning of **`run_only_this_script.R`**. 4. **Script behavior:** This main script automatically calls any additional scripts (for fish or mussel models) and finds the parameter files stored in the same folder. It also reads and processes the environmental data found there. With this setup, you do not need to manage any subdirectories—just keep everything together, and the scripts will handle the rest. ## Code/software The code is compatible with R software and can be executed directly within the R environment.