I have data on a certain complex association network (from monomers 1 ... 8 to complexes of all combinations, such as, 12 ... 13 ... 18 and so on until 12345678, so that I know
- the structure of the network (255 vertices)
- the edges of the network
- the concentrations of the vertices
From this data I now wish to infer the preferred route(s) of assembly for those complexes - which should be the rate constants for the edges, such as 1 --> 12 or 145 --> 1458. Does that make sense?
I have now tried various standalone applications for network creation/analysis as well as R packages. Metabolic flux analysis seemed promising for me, but it turned out that it only works with set external concentrations and assumes steady-state for all metabolites within the network. Which is not the case for me. Do you know of any alternative method?
Thanks and best wishes, Simon