phytoplankton

Code for the AED2 water quality / ecology library

Calculating future changes in Arctic phytoplankton using the emergent constraint method

This is the base code of the University of Victoria (UVic) Earth System Climate Model version 2.9 with the Model of Ocean Biogeochemistry and Isotopes (MOBI).

Popcycle is an R package that offers reproducible analytical tools to analyze flow cytometry data collected by SeaFlow

A PyTorch implementation of the Multi-Mode CNN to reconstruct Chlorophyll-a time series in the global ocean from oceanic and atmospheric physical drivers

As part of my PhD I created a 1D biogeochemical configuration based on PISCES model (version 1 - Bopp et al, 2005) The configuration was created to study the impact of environmental changes (mainly Mixed Layer Depth and Light) over Southern Ocean primary production, from the seasonal to decadal scales.

Functions and a walkthrough to visualize common photosynthesis-irradiance relationships

This repository provides scripts for applying DINEOF and DINCAE to gap-fill total chlorophyll-a (TChla) and chlorophyll-a concentrations of five major phytoplankton functional types (PFTs) in the Atlantic Ocean.

Supplementary files for Ribeiro et al. ISME 2018

Research Derby project to study the connection between MJO, chlorophyll-a, and SST

Planktos is an image recognition model tailored for classifying various species of phytoplankton. Built using cutting-edge machine learning algorithms, this tool enables researchers and environmentalists to automate and accelerate the identification process, enhancing studies in marine biology and ecology.

Modules for the Lagrangian Plankton Model (LPM) integrated on the PALM LES model in the ocean mixed layer

Calculate various MHWs(Marine Heat Waves) properties from daily SST datas

Southern Ocean phytoplakton observations stored in a relational SQL database

An R Shiny application for easy-to-use phytoplankton chemotaxonomy. This app wraps the phytoclass Simulated Annealing algorithm to determine class abundances from HPLC pigments, featuring interactive quality control, pigment clustering, and visualization.

assess the impact of 2024 Central American fires on surface ocean properties in the Gulf of Mexico

Successor to the SoG-bloomcast project that uses an ensemble forecast.

An optimized tool in Python for simulating eutrophication, nutrient cycle and transport and phytoplankton dynamics, which is compatible with parameter optimization tools.

Individual Based Model of NPZ dynamics.