Systems Biology Lab, Vrije Universiteit Amsterdam

This is the code repository of the Systems Biology Lab. Our lab studies the molecular networks inside cells that give rise to cell behavior and fitness.

ecmtool Public
Uncover organisms' metabolic blueprints

Python 4 MIT 3 2 0 Updated Feb 4, 2022
cbmpy Public
CBMPy is a Python based platform for constraint based modelling and analysis.

Python 7 GPL-3.0 3 12 0 Updated Dec 23, 2021
cbmpy-metadraft Public
CBMPy Metadraft: a flexible and extensible genome-scale model reconstruction tool

HTML 1 2 5 0 Updated Sep 20, 2021
stochpy Public
StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks

Python 31 BSD-3-Clause 9 3 0 Updated Jul 12, 2021
anaerobic-benzene-degrading-culture Public
Code repository for Chrats paper

0 0 0 0 Updated May 8, 2021
elementary-mode-based-FBA-rationale Public
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

Python 0 0 0 0 Updated Apr 15, 2021
pub-data Public
Repository for published, public supplementary material

HTML 0 3 0 0 Updated Jan 17, 2021
cbmpy-metadraft-templates Public
Template models for MetaDraft

0 1 0 0 Updated Nov 3, 2020
funciminer Public

R 0 0 0 0 Updated Oct 2, 2020
sbl-template-pub Public template
Template for new SysBioLab repositories

0 0 0 0 Updated Jul 15, 2020

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