findRxnFlux: Function to get all reactions fluxes that are associated with...
In BacArena: Modeling Framework for Cellular Communities in their Environments

Description Usage Arguments Details See Also Examples

The generic function findRxnFlux returns a matrix with the flux for each organism and the reaction that is using the metabolite of the given exchange reaction

findRxnFlux(object, ex, time, print_reactions = FALSE, drop_unused = TRUE)

## S4 method for signature 'Eval'
findRxnFlux(object, ex, time, print_reactions = FALSE, drop_unused = TRUE)

`object`	An object of class Eval.
`ex`	An exchange reaction of which the metabolite should be shared for in all reactions
`time`	the time point of the simulation which should be considered
`print_reactions`	If true the detailed definition of each reactions is printed
`drop_unused`	If true then inactive reactions will be excluded

Returns a list with the minimum and maximum substance usage for each time point.

Eval-class and simEnv

data(Ec_core, envir = environment()) #get Escherichia coli core metabolic model
bac <- Bac(Ec_core,deathrate=0.05,
           minweight=0.05,growtype="exponential") #initialize a bacterium
arena <- Arena(n=20,m=20) #initialize the environment
arena <- addOrg(arena,bac,amount=10) #add 10 organisms
arena <- addSubs(arena,40) #add all possible substances
eval <- simEnv(arena,5)
fluxlist <- findRxnFlux(eval, "EX_h(e)", 5)