changeOrg: Change organisms in the environment

In euba/BacArena: Modeling Framework for Cellular Communities in their Environments

Change organisms in the environment

Description

The generic function changeOrg changes organisms in the environment.

Usage

changeOrg(object, neworgdat)

## S4 method for signature 'Arena'
changeOrg(object, neworgdat)

Arguments

object	An object of class Arena.
neworgdat	A data frame with new information about the accumulated biomass, type, phenotype, x and y position for each individual in the environment.

Details

The argument neworgdat contains the same information as the orgdat slot of Arena-class. The orgdat slot of an Arena object can be used to create neworgdat.

See Also

Arena-class and addOrg

Examples

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
neworgdat <- arena@orgdat #get the current orgdat
neworgdat <- neworgdat[-1,] #remove the first individual
arena <- changeOrg(arena,neworgdat)

euba/BacArena documentation built on March 27, 2024, 2:33 p.m.