sybil: changeUptake-methods – R documentation

Pricing

Become an expert in R — Interactive courses, Cheat Sheets, certificates and more!

Get Started for Free

Documentation

sybil

changeUptake-methods

Change Uptake Reactions

Description

Switch uptake reactions in metabolic networks on and off.

Usage

## S4 method for signature 'modelorg'
changeUptake(object, off = NULL, on = NULL,
                                  rate = SYBIL_SETTINGS("MAXIMUM") * -1)

Arguments

`object`	An object of class `modelorg`.
`off`	A numeric or character vector or an object of class `reactId_Exch` containing the metabolite id's of metabolites to not use for uptake. If they have an exchange reaction with a lower bound less than zero, this lower bound is set to `0`. If `off` is set to `NULL`, all uptake reactions will be deactivated. If `off` is set to `FALSE`, no uptake reaction will be deactivated. If you just want to add an uptake reaction, set `off` to `FALSE`. Default: `NULL`.
`on`	A numeric or character vector or an object of class `reactId_Exch` containing the metabolite id's of metabolites to use for uptake. Default: `NULL`.
`rate`	A numeric vector containing the uptake rates for metabolites given in `on`. Default: `SYBIL_SETTINGS("MAXIMUM") * -1`.

Value

An object of class modelorg.

Methods

signature(object = "modelorg"): method to use with objects of class modelorg.

Author(s)

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

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