Return values of predicted reaction fluxes

[jonrkarr]

Some studies examine predictions for reaction fluxes. It would be great to return these values.

We we're working with BioModels to add buttons such as "Simulate with GillesPy2", "Simulate with COPASI", etc. Some studies require this information.

[briandrawert]

Can you please clarify what is meant by reaction fluxes? If possible, please provide a model that has this feature.

[jonrkarr]

COPASI, tellurium, VCell and others can return the rate/velocity/flux of each reaction at each time point. Here's the corresponding method of RoadRunner.

Here's a few examples of simulation experiments in BioModels which involve observables for reaction fluxes

• BIOMD0000000627
  • See curation notes: https://www.ebi.ac.uk/biomodels/BIOMD0000000627#Curation
  • The image in the curation notes reproduces Figure 3a of https://journals.sagepub.com/doi/10.1177/0271678X17693024
• BIOMD0000000477
• BIOMD0000000674
• BIOMD0000000847