Code and model outputs for article "Assessing the potential of backscattering as a proxy for phytoplankton carbon biomass"

Scripts from the scientific article "Assessing the potential of backscattering as a proxy for phytoplankton carbon biomass"
Submitted to Global Biogeochemical Cycles
Camila Serra-Pompei, Anna Hickman, Gregory L. Britten, Stephanie Dutkiewicz

This repository contains all the files needed to run the MITgcm Biogeochemical and Optical model (MITgcmBgc, a.k.a. The Darwin model) and generate the figures in the paper.
Model outputs are also provided, so there is no need to run the entire model to generate the figures.

The main folder "codes_phyto_bbp_paper.zip" contains all the files to process model output and reproduce the figures from the paper. The main files are:
    - "Script_main.m" loads and processes model outputs and generates figures 2 to 9.
    - "Script_new_optical_params" generates the optical parameters that are used as inputs in the MITgcmBgc model. It also generates figure 1.
    - "Script_sensitivity_analysis" Performs offline sensitivity analysis and figure 10.

The "mitgcm_darwin_3.zip" folder contain the code of the MITgcm with the Biogeochemical and Optical modules (Darwin package), with the configurations used in this study. Explanations of the model can be found in https://darwin3.readthedocs.io/en/latest/phys_pkgs/darwin.html 

These folders also contain the BGC-Argo floats data and climatological bbp and Chl NASA MODIS-Aqua GIOP data used in this study.

The BGC-Argo data used in this article (download date: 27/10/2021) is available in "Other_extra_files/Argo_matrix.mat". The BGC-Argo data were collected and made freely available by the International Argo Program and the national programs that contribute to it (https://argo.ucsd.edu,  https://www.ocean-ops.org, https://doi.org/10.17882/42182).  The Argo Program is part of the Global Ocean Observing System. BGC-Argo float data was extracted using the BGC-Argo-Mat Matlab toolbox (Frenzel et al. 2021).

The MODIS-Aqua satellite remote sensing data used in this article (download date: 23/12/2022) is available here in the folder "nasa_data". Satellite remote sensing data was extracted from NASA Goddard Space Flight Center, Ocean Ecology Laboratory, Ocean Biology Processing Group; (2014): MODIS-Aqua Ocean Color Data; NASA Goddard Space Flight Center, Ocean Ecology Laboratory, Ocean Biology Processing Group. http://dx.doi.org/10.5067/AQUA/MODIS_OC.2014.0