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Table 1 Feature comparison of several tools for metabolic network visualization

From: An integrated network visualization framework towards metabolic engineering applications

  OptFlux visualization plugin CellDesigner Cytoscape VANTED Paint4Net CellNet-analyzer Cobra toolbox
File formats/standards        
SBML  
SBGN     
GML       
XGMML       
KGML      
Cobra maps      
Layout algorithms        
FDL     
Hierarchical       
Circular      
Grid       
Organic       
Integration with ME        
Flux distributions  
Genetic conditions       
Elementary flux modes       
Simulation comparison       
Other features        
Layout generation  
Layout exportation
Edition  
Multiple layouts     
Partial layouts