Thanks for creating this tool! I have been able to generate GIMME and E-Flux solutions on my transcriptomic data, but was wondering if there was a way to convert these objects into a useable cobra model that retains the flux values + objective provided in the solution. I've tried to copy the original model, add in the solution-defined constraints, and remove reactions with zero flux, but the objective repeatedly remains unchanged. Additionally, in the case of E-Flux, when I execute the protocol above, I'm left with a model of objective 0.0, with all reactions having zero flux.
If you have any feedback regarding this, please let me know. Thanks again!
Hello @vmspereira,
Thanks for creating this tool! I have been able to generate GIMME and E-Flux solutions on my transcriptomic data, but was wondering if there was a way to convert these objects into a useable cobra model that retains the flux values + objective provided in the solution. I've tried to copy the original model, add in the solution-defined constraints, and remove reactions with zero flux, but the objective repeatedly remains unchanged. Additionally, in the case of E-Flux, when I execute the protocol above, I'm left with a model of objective 0.0, with all reactions having zero flux.
If you have any feedback regarding this, please let me know. Thanks again!
Best, Rohak