consume: Function to account for the consumption and production of...

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

Function to account for the consumption and production of substances

Description

The generic function consume implements the consumption and production of substances based on the flux of exchange reactions of organisms

Usage

consume(object, sublb, cutoff = 1e-06, bacnum, fbasol)

## S4 method for signature 'Organism'
consume(object, sublb, cutoff = 1e-06, bacnum, fbasol)

Arguments

object	An object of class Organisms.
sublb	A vector containing the substance concentrations in the current position of the individual of interest.
cutoff	A number giving the cutoff value by which value of objective function is considered greater than 0.
bacnum	Integer indicating the number of bacteria individuals per gridcell
fbasol	Problem object according to the constraints and then solved with optimizeProb.

Details

The consumption is implemented by adding the flux of the exchange reactions to the current substance concentrations.

Value

Returns the updated vector containing the substance concentrations in the current position of the individual of interest.

See Also

Organism-class

Examples

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