dat2mat: Function for transforming the organism data frame to a...

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

Function for transforming the organism data frame to a presence/absence matrix of organisms

Description

The generic function dat2mat simulates the event of mixing all substrates and organisms in the environment.

Usage

dat2mat(object)

## S4 method for signature 'Arena'
dat2mat(object)

Arguments

object

An object of class Arena.

Value

Returns the presence/absence matrix of organisms on the grid based on the orgdat slot of the Arena class.

See Also

Arena-class and getSublb

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
occmat <- dat2mat(arena)
image(occmat)

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