Arena-class: Structure of the S4 class "Arena"
Description
Structure of the S4 class Arena to represent the environment in which Organisms and Substances interact.
Slots
orgdat- A data frame collecting information about the accumulated growth, type, phenotype, x and y position for each individual in the environment.
specs- A list of organism types and their associated parameters.
media- A list of objects of class
Substance-class for each compound in the environment. phenotypes- A list of unique phenotypes (metabolites consumed and produced), which occurred in the environment.
mediac- A character vector containing the names of all substances in the environment.
tstep- A number giving the time (in h) per iteration.
stir- A boolean variable indicating if environment should be stirred.
mflux- A vector containing highly used metabolic reactions within the arena
n- A number giving the horizontal size of the environment.
m- A number giving the vertical size of the environment.
Lx- A number giving the horizontal grid size in cm.
Ly- A number giving the vertical grid size in cm.
gridgeometry- A list containing grid geometry parameter
seed- An integer refering to the random number seed used to be reproducible
scale- A numeric defining the scale factor used for intern unit conversion.