Supplementary materials for "Effects of mesozooplankton growth and reproduction on plankton and organic carbon dynamics in a marine biogeochemical model"

Overview This folder contains supplementary materials corresponding to the analysis conducted for "Effects of mesozooplankton growth and reproduction on plankton and organic carbon dynamics in a marine biogeochemical model". The folder is structured into two .zip files. ZENODO_PISCES_MLC.zip contains the analysis presented in the paper. BDM-MAREDAT-ZENODO.zip contains the outputs from the Biomass Distribution Models pipeline developped by Nielja Knecht (10.5281/zenodo.7888451) applied to the MAREDAT mesozooplankton product. ZENODO_PISCES_MLC Folder Structure BDM MAREDAT_TUNED_SDM.csv: This file contains the BDM mesozooplankton biomass monthly climatology from MAREDAT data. CODE This directory contains Jupyter Notebook files (.ipynb) and related Python scripts used for data analysis and visualization. Below is a list of the files: Code_Fig3_FigA8_FigA17.ipynb: Jupyter Notebook for generating figures 3, A8, and A17. Code_Fig4.ipynb: Jupyter Notebook for generating figure 4. Code_Fig5_FigA12_FigA13.ipynb: Jupyter Notebook for generating figures 5, A12, and A13. Code_Fig6.ipynb: Jupyter Notebook for generating figure 6. Code_Fig7.ipynb: Jupyter Notebook for generating figure 7. Code_FigA10.ipynb: Jupyter Notebook for generating figure A10. Code_FigA11.ipynb: Jupyter Notebook for generating figure A11. Code_FigA14.ipynb: Jupyter Notebook for generating figure A14. Code_FigA15.ipynb: Jupyter Notebook for generating figure A15. Code_FigA16.ipynb: Jupyter Notebook for generating figure A16. Code_FigA1.ipynb: Jupyter Notebook for generating figure A1. Code_FigA2.ipynb: Jupyter Notebook for generating figure A2. Code_FigA6_FigA7.ipynb: Jupyter Notebook for generating figures A6 and A7. Code_FigA9.ipynb: Jupyter Notebook for generating figure A9. Code_POC_metrics_not_in_the_paper.ipynb: Jupyter Notebook containing metrics related to particulate organic carbon (POC) not included in the paper. Code_Table3.ipynb: Jupyter Notebook for generating table 3. Code_Table4.ipynb: Jupyter Notebook for generating table 4. Code_Table5.ipynb: Jupyter Notebook for generating table 5. GlobalEstimatesAbstract.ipynb: Jupyter Notebook containing global estimates abstract. mlctools: Python package containing utility functions for the analysis. OBS This directory contains observed data used in the analysis: BATS_zooplankton.csv: Zooplankton data from the Bermuda Atlantic Time-series Study (BATS). CHL2.nc: Chlorophyll data in NetCDF format. climatology_n_0_5.nc: Climatological data in NetCDF format. HOTS_zooplankton.csv: Zooplankton data from the Hawaii Ocean Time-series (HOTS). OUTPUT This directory contains output files from PISCES simulations (yearly, monthly and 5-day-average outputs). 0class: Output files for the '0class' classification corresponding to PISCES-v2. 0classregrid: Regridded output files for the '0class' classification corresponding to PISCES-v2. 10classes: Output files for the '10classes' classification corresponding to PISCES-MOG. 10classesregrid: Regridded output files from PISCES-MOG. 2classes: Output files from PISCES-MOG-2LS. 2classesregrid: Regridded output files from PISCES-MOG-2LS. NOALLOregrid: Regridded output files from PISCES-MOG-NA. PLOT This directory contains plots generated during the analysis: TEMP This directory contains temporary files used during the analysis, including data files and matrices. BDM-MAREDAT-ZENODO Folder BDM-MAREDAT-ZENODO.zip contains the outputs from the Biomass Distribution Models pipeline developped by Nielja Knecht (10.5281/zenodo.7888451) applied to the MAREDAT mesozooplankton product. For any inquiries or data access requests, please contact corentin.clerc -at- usys.ethz.ch

概述 本文件夹包含与论文《中型浮游动物生长繁殖对海洋生物地球化学模型中浮游生物与有机碳动态的影响（Effects of mesozooplankton growth and reproduction on plankton and organic carbon dynamics in a marine biogeochemical model）》对应的分析补充材料。本文件夹包含两个压缩包文件。其中ZENODO_PISCES_MLC.zip包含论文中呈现的分析内容；BDM-MAREDAT-ZENODO.zip包含由Nielja Knecht开发的生物量分布模型（Biomass Distribution Models, BDM）流程（DOI: 10.5281/zenodo.7888451）应用于MAREDAT中型浮游动物数据集得到的输出结果。

ZENODO_PISCES_MLC 文件夹结构
MAREDAT_TUNED_SDM.csv：该文件包含来自MAREDAT数据集的中型浮游动物生物量月度气候态数据。
CODE 目录：存放用于数据分析与可视化的Jupyter笔记本（Jupyter Notebook）文件（.ipynb）及相关Python脚本。文件列表如下：
- Code_Fig3_FigA8_FigA17.ipynb：用于生成图3、图A8和图A17的Jupyter笔记本。
- Code_Fig4.ipynb：用于生成图4的Jupyter笔记本。
- Code_Fig5_FigA12_FigA13.ipynb：用于生成图5、图A12和图A13的Jupyter笔记本。
- Code_Fig6.ipynb：用于生成图6的Jupyter笔记本。
- Code_Fig7.ipynb：用于生成图7的Jupyter笔记本。
- Code_FigA10.ipynb：用于生成图A10的Jupyter笔记本。
- Code_FigA11.ipynb：用于生成图A11的Jupyter笔记本。
- Code_FigA14.ipynb：用于生成图A14的Jupyter笔记本。
- Code_FigA15.ipynb：用于生成图A15的Jupyter笔记本。
- Code_FigA16.ipynb：用于生成图A16的Jupyter笔记本。
- Code_FigA1.ipynb：用于生成图A1的Jupyter笔记本。
- Code_FigA2.ipynb：用于生成图A2的Jupyter笔记本。
- Code_FigA6_FigA7.ipynb：用于生成图A6和图A7的Jupyter笔记本。
- Code_FigA9.ipynb：用于生成图A9的Jupyter笔记本。
- Code_POC_metrics_not_in_the_paper.ipynb：包含论文未收录的颗粒有机碳（Particulate Organic Carbon, POC）相关指标的Jupyter笔记本。
- Code_Table3.ipynb：用于生成表3的Jupyter笔记本。
- Code_Table4.ipynb：用于生成表4的Jupyter笔记本。
- Code_Table5.ipynb：用于生成表5的Jupyter笔记本。
- GlobalEstimatesAbstract.ipynb：包含全球估算摘要的Jupyter笔记本。
- mlctools：用于数据分析的Python工具包。
OBS 目录：存放分析中使用的观测数据：
- BATS_zooplankton.csv：来自百慕大大西洋时间序列研究（Bermuda Atlantic Time-series Study, BATS）的浮游动物数据。
- CHL2.nc：NetCDF格式的叶绿素数据。
- climatology_n_0_5.nc：NetCDF格式的气候态数据。
- HOTS_zooplankton.csv：来自夏威夷海洋时间序列研究（Hawaii Ocean Time-series, HOTS）的浮游动物数据。
OUTPUT 目录：存放PISCES模拟的输出文件（包含年度、月度及5日平均输出结果）：
- 0class：对应PISCES-v2的“0class”分类的输出文件。
- 0classregrid：对应PISCES-v2的“0class”分类的重网格化输出文件。
- 10classes：对应PISCES-MOG的“10classes”分类的输出文件。
- 10classesregrid：来自PISCES-MOG的重网格化输出文件。
- 2classes：来自PISCES-MOG-2LS的输出文件。
- 2classesregrid：来自PISCES-MOG-2LS的重网格化输出文件。
- NOALLOregrid：来自PISCES-MOG-NA的重网格化输出文件。
PLOT 目录：存放分析过程中生成的可视化图表。
TEMP 目录：存放分析过程中使用的临时文件，包含数据文件与矩阵文件。

BDM-MAREDAT-ZENODO 文件夹
BDM-MAREDAT-ZENODO.zip包含由Nielja Knecht开发的生物量分布模型流程（DOI: 10.5281/zenodo.7888451）应用于MAREDAT中型浮游动物数据集得到的输出结果。
若有任何咨询或数据获取请求，请联系 corentin.clerc -at- usys.ethz.ch