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sybil (version 1.1.2)

oneGeneDel: One Gene Deletion Experiment

Description

Compute in sillico simulations of single-gene knock out mutants.

Usage

oneGeneDel(model, geneList, ...)

Arguments

model
An object of class modelorg.
geneList
A character vector containing the set of genes to be deleted. If the argument is missing, geneList is set to allGenes(model).
...
Further arguments passed to optimizer. Important ones are alg or solverParm in order to set parameter values for the optimization software.

Value

encoding

utf8

Details

The function ondFluxDel studies the effect of deletion of a single gene on the current objective function (e.g. biomass production). The first step is the calculation of a reference solution, which is the wild type solution. Then n further optimizations are performed (n: number of fluxes) with $v_i = 0$ for $i = 1,\dots,n$.

See Also

modelorg, optsol, optsol_genedel, checkOptSol, optimizer and SYBIL_SETTINGS.

Examples

Run this code
data(Ec_core)
  Ec_ofd <- oneFluxDel(Ec_core)

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