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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