ecotoxicology

An R package to fit and plot Species Sensitivity Distributions (SSDs)

A collection of transformer-based models and developmental scripts presented in the publication "Transformers enable accurate prediction of acute and chronic chemical toxicity in aquatic organisms".

Standardising toxicity data

The rebirth of IMPACT World+ in a fully automated and transparent fashion.

web based multi-agent simulator for individual-based modeling in population dynamics and ecotoxicology

Bayesian No-Effect-Concentration estimation in R

Refactored version of the drc package, a framework for fitting and analyzing dose–response models. This repository restructures the codebase to improve maintainability, transparency, and future development.

Miscellaneous Functions for Environmental Analyses

✨📦👩‍💻 shinyssd v1.0: Species Sensitivity Distributions for Ecotoxicological Risk Assessment - R-Shiny app

This project repository is connected to the journal article ‘A Novel Multi-Species Toxicokinetic Modeling Approach in Support of Chemical Risk Assessment’ by Mangold-Döring et al. 2021. The key element of this repository is the Jupyter Notebook with the model code (Multi-species-PBTK-model.ipynb), in which you will find a more detailed descripti…

An R package to simulate ecotox TK/TD models, calculate effects, derive effect profiles, and to fit model parameters to observed data.

Source code for the web application associated with "Transformers enable accurate prediction of acute and chronic chemical toxicity in aquatic organisms".

Example R scripts to create a dose-response curve and extract ECx-values.

REcoTox is a semi-automated, interactive R workflow to process US EPA ECOTOX Knowledgebase entire database ASCII files

Biochemical biomarker analysis of mussels from 74 sites across Puget Sound from the WDFW 'Mussel Watch' program.

Paper - Effect of the plastic pollutant bisphenol A on the biology of aquatic organisms: A meta-analysis

This project aims to be a handler for input creation and running of multiple RICEWQ simulations.

Open-source desktop application for OECD TG 236 zebrafish embryo toxicity (FET) assays — experimental design, daily well scoring, LC50/NOEC/LOEC and sublethal endpoint analysis, OECD validity checks, and automated Word report generation. Developed by Henrique Tamanini S. Moschen, University of Brasilia.

ML pipeline for counting Collembola organisms in ecotoxicity soil slide images

Prediction of chronic SSD