Python package to study microbial communities using metabolic modeling.
A Python framework for structural systems biology
StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
Reaction Inclusion by Parsimony and Transcript Distribution
Constraint-based modeling of metabolism using Mixed Integer Optimization
Multivariate thermodynamics-based metabolic flux analysis in Python.
Python package and workflow for EFM calculation via (mp)lrs and efmtool
Data and tools necessary to construct iJL1678b-ME, a genome-scale model of E. coli K-12 MG1655 metabolism and expression
Constraint-based model vulnerabilities analysis - Python analysis tool http://contrabass.unizar.es
ECMproject is a standalone python program, which enumerates Elementary Conversion Modes (ECMs) of metabolic models.
Multi-scale model of Metabolism In Cellular Systems
findCP CLI package - find ChokePoint reactions in genome-scale metabolic models
Adjusting for false discoveries in constraint- and sampling-based differential metabolic flux analysis
Machine learning pipeline for genome-scale metabolic engineering and intervention ranking in E. coli using COBRApy and FBA.
COBRApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
FBAhv: FBA analysis of host-virus metabolic model (read related publication at: https://www.life-science-alliance.org/content/4/1/e202000869)
Flux Balance Analysis of E. coli Core Model using COBRApy | Systems Biology & Data Science
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