FASIMU: Flux-balance Analysis based SIMUlations

Features of the simulation series in FASIMU

Control file (name simulations) format

Each simulation is described in a single line, consisting of 5 items:
  1. Identifier
  2. One or more objective(s)
  3. Constraints: allowed exchange over the system boundary, inhibited reaction or direction
  4. One or more evaulator(s) to check whether the computed flux distribution is as desired
  5. Comment

Predefined control files

  • for pruning
  • for flux-variability analysis
  • produce every metabolite in the system
  • degrade every metabolite in the system
  • leak check

Export functions for computed flux distributions