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