changeBounds: Change Variable Bounds in a Metabolic Network
In SysBioChalmers/sybil: Efficient Constrained Based Modelling

changeBounds

R Documentation

Change Variable Bounds in a Metabolic Network

Description

The function changes the upper and/or lower bounds of a given metabolic network model to new values.

Usage

  changeBounds(model, react, lb = NULL, ub = NULL)

Arguments

`model`	An object of class `modelorg`.
`react`	An object of class `reactId`, character or integer. Specifies the fluxes (variables) for which to change the upper and/or lower bounds.
`lb`	Numeric vector giving the lower bounds for the fluxes mentioned in `react`. If missing, lower bounds are set to zero. If `lb` has a length of 1, the value of `lb` will be used for all reactions in `react`.
`ub`	Numeric vector giving the upper bounds for the fluxes mentioned in `react`. If missing, upper bounds are set to zero. If `ub` has a length of 1, the value of `ub` will be used for all reactions in `react`.

Details

The argument react will be evaluated by the function checkReactId.

Value

Returns the given model (an object of the same class as the argument lpmodel) containing the new objective function.

Author(s)

Gabriel Gelius-Dietrich <geliudie@uni-duesseldorf.de>

Maintainer: Mayo Roettger <mayo.roettger@hhu.de>

Examples

  ## change the E.coli core model to lactate input:
  data(Ec_core)
  Ec_new <- changeBounds(Ec_core,
                         c("EX_glc", "EX_lac"),
                         lb = c(0, -20), ub = 1000)

SysBioChalmers/sybil documentation built on Aug. 24, 2023, 1:08 p.m.