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Data, model and coding-script supporting analysis for Henriksen et al. (2024), Effects of sediment type and light availability on the burying behavior of small sandeel (Ammodytes tobianus)

This repository contains all supporting materials for the research paper by Henriksen et al. (2024), titled "Effects of sediment type and light availability on the burying behavior of small sandeel (Ammodytes tobianus)." Included are the README file, raw data, R script for statistical analysis, and model coding, which facilitate the replication of our findings and further exploration of sediment preferences and light influence on sandeel behavior. These materials provide a comprehensive insight into the methodology and statistical analysis applied in the study, using R and the TMB package.

Files Included
1. Sandeel_sediment_preference.R - Main R script for analysis - © Copyright 2024 Technical University of Denmark BSD-3-Clause

2. SedimentSandeel.csv - Dataset containing results of sediment analysis for different sediments used for each experiment CCBY-4.0

3. Untagged_results.csv - Dataset containing experimental results on sandeel sediment preferences for experiment 1 CCBY-4.0

4. Untagged_Sed2.csv - Dataset containing experimental results on sandeel sediment preferences for experiment 2 CCBY-4.0

5. Untagged_Sed2_length.csv - Dataset containing measured lengths of individual sandeel used in experiment 2 CCBY-4.0

6. Untagged_Sed2.csv - Dataset containing experimental results on sandeel sediment preferences under different light conditions for experiment 3 CCBY-4.0

7. raw3.cpp - multinomial model used for Exp. 1 in C++ build with template model builder (TMB) © Copyright 2024 Technical University of Denmark BSD-3-Clause

8. repmea.cpp - multinomial model used for Exp. 2 that included repeated measurements in C++ build with template model builder (TMB) © Copyright 2024 Technical University of Denmark BSD-3-Clause

9. raw5.cpp - multinomial model used for Exp. 3 having both different sediments and light levels in C++ build with template model builder (TMB) © Copyright 2024 Technical University of Denmark BSD-3-Clause

Contact: For any queries related to this script, please contact Ole Henriksen at DTU Aqua, ohen@aqua.dtu.dk, or one of the other authors of the manuscript below.

Citation:

Henriksen, Ole; van Deurs, Mikael; Behrens, Jane (2024). Data, model and coding-script supporting analysis for Henriksen et al. (2024), Effects of sediment type and light availability on the burying behavior of small sandeel (Ammodytes tobianus). Technical University of Denmark. Model. https://doi.org/10.11583/DTU.25814107

Please also see and cite following study if you use this script or its outputs:

Henriksen et al. (2024), Effects of sediment type and light availability on the burying behavior of small sandeel (Ammodytes tobianus), Journal of Experimental Marine Biology and Ecology.

History

ORCID for corresponding depositor