stirEnv: Function for stirring/mixing the complete evironment

Description Usage Arguments Details Value See Also Examples

Description

The generic function stirEnv simulates the event of mixing all substrates and organisms in the environment.

Usage

1
2
3
4
stirEnv(object, sublb)

## S4 method for signature 'Arena'
stirEnv(object, sublb)

Arguments

object

An object of class Arena.

sublb

A matrix with the substrate concentration for every individual in the environment based on their x and y position.

Details

The stirring is implemented as a random permutation of organism positions and the equalization of of all substrate concentrations.

Value

Returns the substrate concentration for every individual in the environment with substrates as well as x and y positions as columns and rows for each organism.

See Also

Arena-class and getSublb

Examples

1
2
3
4
5
6
7
8
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
sublb <- getSublb(arena)
stirEnv(arena,sublb)

BacArena documentation built on May 9, 2018, 5:04 p.m.