geneDel: Get Gene-Reaction Association
In sybil: Efficient Constrained Based Modelling

Description Usage Arguments Details Value Author(s) References See Also

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

1	geneDel(model, genes, checkId = FALSE)

`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`.

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.

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

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

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

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.

optimizer

sybil documentation built on May 31, 2021, 5:08 p.m.