Code and model outputs for article "Assessing the potential of backscattering as a proxy for phytoplankton carbon biomass"
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Scripts from the scientific article "Assessing the potential of backscattering as a proxy for phytoplankton carbon biomass"<br> Submitted to Global Biogeochemical Cycles<br> 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.<br> 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:<br> - "Script_main.m" loads and processes model outputs and generates figures 2 to 9.<br> - "Script_new_optical_params" generates the optical parameters that are used as inputs in the MITgcmBgc model. It also generates figure 1.<br> - "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
本仓库收录了学术论文《评估后向散射作为浮游植物碳生物量替代指标的潜力》（Assessing the potential of backscattering as a proxy for phytoplankton carbon biomass）的配套脚本，该论文投稿至《全球生物地球化学循环》（Global Biogeochemical Cycles）期刊，作者为Camila Serra-Pompei、Anna Hickman、Gregory L. Britten与Stephanie Dutkiewicz。 本仓库包含运行MITgcm生物地球化学与光学模型（MITgcmBgc，又称达尔文模型（Darwin model））以及复现该论文所有图表所需的全部文件，同时提供了模型输出结果，无需运行完整模型即可生成论文图表。 主文件夹`codes_phyto_bbp_paper.zip`包含处理模型输出并复现论文图表的全部文件，主要文件如下： - `Script_main.m`：加载并处理模型输出结果，生成图2至图9； - `Script_new_optical_params`：生成MITgcmBgc模型所需输入的光学参数，同时生成图1； - `Script_sensitivity_analysis`：开展离线敏感性分析，并生成图10。 `mitgcm_darwin_3.zip`文件夹包含本研究使用的搭载生物地球化学与光学模块（达尔文套件，Darwin package）的MITgcm源代码，模型详细说明可参考链接：https://darwin3.readthedocs.io/en/latest/phys_pkgs/darwin.html。 本仓库同时包含本研究使用的BGC-Argo浮标数据（Biogeochemical-Argo floats data）、气候态粒子后向散射系数bbp与叶绿素Chl的NASA MODIS-Aqua GIOP数据。 本文使用的BGC-Argo数据（下载日期：2021年10月27日）存储于`Other_extra_files/Argo_matrix.mat`文件内。BGC-Argo数据由国际Argo计划及其参与国的项目团队收集并免费公开，相关链接：https://argo.ucsd.edu、https://www.ocean-ops.org、https://doi.org/10.17882/42182。Argo计划隶属于全球海洋观测系统（Global Ocean Observing System）。本研究中的BGC-Argo浮标数据通过BGC-Argo-Mat Matlab工具箱（Frenzel等，2021）提取得到。 本文使用的MODIS-Aqua卫星遥感数据（下载日期：2022年12月23日）存储于`nasa_data`文件夹中。该卫星遥感数据由NASA戈达德航天中心海洋生态实验室海洋生物处理组发布：（2014）《MODIS-Aqua海洋色数据》，NASA戈达德航天中心海洋生态实验室海洋生物处理组，相关链接：http://dx.doi.org/10.5067/AQUA/MODIS_OC.2014.0
