Name: Systems Biology Lab, Vrije Universiteit Amsterdam
Type: Organization
Bio: This is the code repository of the Systems Biology Lab. Our lab studies the molecular networks inside cells that give rise to cell behaviour and fitness.
Location: Amsterdam, The Netherlands
Blog: http://teusinkbruggemanlab.nl/
Systems Biology Lab, Vrije Universiteit Amsterdam's Projects
Code repository for Chrats paper
CBMPy is a Python based platform for constraint based modelling and analysis.
CBMPy Metadraft: a flexible and extensible genome-scale model reconstruction tool
Template models for MetaDraft
Dynamic Community FBA repository
Uncover organisms' metabolic blueprints
Code that uses Elementary Conversion Mode computation to obtain all relevant conversions for a constraint-based optimization problem, i.e., all possible optimal yields between the constrained nutrients and the objective function. As published in Metabolites https://doi.org/10.3390/metabo11050257
Toolbox for including enzyme constraints on a genome-scale model.
This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function
MetaToolkit-MetaDraft GUI based reconstruction of genome scale metabolic models
Construct parser combinators in R
Repository for published, public supplementary material (archived, for new data please use a data repository)
Template for new SysBioLab repositories
StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks
VoNDA: Visualization of Network DAta
visualisation of the yeast metabolic network