From: FASIMU: flexible software for flux-balance computation series in large metabolic networks
FASIMU | COBRA | OptFlux | SBRT | BioSPICE | Pathway Analyser | |
---|---|---|---|---|---|---|
SBML import [41] | + | + | + | + | + | + |
Flatfile import | + | + | + | + | + | - |
SBML export [41] | + | + | + | + | - | - |
expa export [45] | + | + | + | - | + | - |
+ | - | + | + | - | - | |
Biomass maximization [1] | + | + | + | + | + | + |
Flux minimization [29] | + | - | - | - | - | - |
Regulatory network | - | - | - | + | - | - |
MOMA [13] | + | - | + | - | + | + |
ROOM [31] | + | - | + | - | - | - |
Fitness maximization [30] | + | - | - | - | - | - |
+ | - | - | - | - | - | |
+ | + | + | + | - | - | |
MFA [35] | + | - | + | + | - | - |
Thermodynamic feasiblity [17] | + | - | - | - | - | - |
Batch computation & scripting | + | + | - | - | - | - |
Description language | + | - | - | + | - | - |
Graphical user interface | - | - | + | + | + | - |
Not depend on commercial software | + | - | + | + | + | - |
Solver selection | 4 | 5 | 1 | 2 | 1 | 1 |
User documentation | + | + | + | + | - | - |
Built-in visualization | - | - | + | - | - | - |
Interaction with CellDesigner [42] | - | - | + | - | - | - |
Interaction with Cytoscape [27] | + | - | + | - | - | - |
Interaction with BiNA [26] | + | - | - | - | - | - |