sybil: geneDel – R documentation

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sybil

geneDel

Get Gene-Reaction Association

Description

The function geneDel returns the fluxes which are effected by a particular combination of genes.

Usage

geneDel(model, genes, checkId = FALSE)

Arguments

`model`	An object of class `modelorg`.
`genes`	A vector of character strings of gene id's used in `model`, or an integer vector with indices to gene id's in `allGenes(model)`.
`checkId`	Boolean. If set to `TRUE`, argument `genes` will be checked wether it fits to `model` (e.g. are all genes existing). If set to `FALSE`, `genes` must contain indices of gene id's in `model`, e.g. in calls from `optimizer`.

Details

The function geneDel checks for a set of gene id's in gene on which fluxes a deletion of this set of genes has an effect.

Value

An numeric vector of pointers to reaction id's in model or NULL, if no fluxes are effected by the gene deletion.

Author(s)

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

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

References

Edwards, J. S., Ibarra, R. U. and Palsson, B. Ø. (2001) In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nat Biotechnol 19, 125–130.