The Biorefinery Simulation and Techno-Economic Analysis Modules

Deep hybrid modeling of bioreactor cell culture data using Long Short-Term Memory (LSTM) networks combined with first principles equations

Mechanistic models in fermentation

Python package for processing of DASware raw data exports.

sbml2hyb is a tool for SBML compatible hybrid modelling of biological systems

Material for standard text book model of fedbatch cultivation.

Material for model of aerated fedbatch cultivation of yeast.

Material for model of fedbatch cultivation of CHO cells.

Repository referring to the theoretical material of CABBIO BR03. (under construction)

Code behind 'Data Driven Modelling and Optimisation for Sustainable Bio-Production' as well as a related simple kinetic model using odes

Material for standard text book model of batch cultivation where substrate measurement noise added and end of batch detected

Material for standard text book model of perfusion cultivation.

Documentation

Material for standard text book model of batch cultivation.

Material for standard text book model of batch cultivation where model is calibrated using time series data for substrate and cell concentration.

R Scripts for quantification of microbial robustness from high-throughput screenings

Agentic AI harness for complex, autonomous, long-horizon biological tasks: pre-experiment DoE planning in fermentation, bioprocess, and biomanufacturing, designed with biosafety in mind. Readiness gating, scale-up and scale-down bridging.

A Fed-Batch Solver

Notebooks with examples to be presented at Modelica 15 in October 2023

Material for standard text book model of chemostat (continuous) cultivation.