mempyDEB is a Python package that provides the basics for doing DEB-TKTD modelling in Python. It mostly defines a baseline model, default parameters and functions to run the model.
To install mempyDEB, use the command
pip install git+https://github.com/simonhansul/mempyDEB.git
(e.g. in Anaconda prompt with the desired environment activated).
The examples directory contains a notebook which demonstrates the basic functionality of this package.
In short, you can run a default simulation using
from mempyDEB.DEBODE.simulators import * # imports functions to run models
from mempyDEB.DEBODE.defaultparams import * # imports default parameters
sim = simulate_DEBBase(defaultparams_DEBBase) # runs the DEBBase model (a variant of DEBkiss) with default parametersGenerally, mempyDEB is a fairly slim package, designed as a low-barrier entry point to DEB-TKTD modelling.
There are not many functions, but the code can be adapted to be used for more extensive (research) tasks.
This pacakge was developed for the course "Mechanistic Effect Modelling" at Osnabrück University, as well as the postgraduate course "Dynamic Modelling of Ecotoxicological Effects" organized at University of Copenhagen.