The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:

The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.

Repository of tutorials for The COBRA Toolbox

Genome-scale model of Yarrowia lipolytica.

Diversity-based enumeration of optimal context-specific metabolic networks

MOOMIN is a tool for analysing differential expression data

Dynamically load-balanced FVA through a hybrid MPI/OpenMP architecture.

Determination of product-growth-coupled strain designs employing stoichiometric metabolic models.

Constraint-based modeling of photorespiratory mutants using metabolomics in TMFA

Code and data for in silico strain design for enhanced production of +100 typical bio-products with yeast as a cell-factory. Predictions are based on the ecYeastGEM model avaiable at ecModels.

Impose constraints on enzyme abundances ratios in enzyme-constraint metabolic models

Integrating the transcriptional regulatory network with genome-scale metabolic models.

EMILiO

Genome-scale metabolic model of Rhodotorula toruloides

Collection of scripts for reproduction of simulation results in "Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0".

Source code for EMILiO: A fast algorithm for genome-scale strain design.

Genome-scale metabolic model of Candida intermedia

geneVa