weightReacts: Compute weights of rescue reactions

In metaboGSE: Gene Set Enrichment Analysis via Integration of Metabolic Networks and RNA-Seq Data

Description

The function weightReacts computes the weights of rescue reactions.

Usage

weightReacts(model, mc.cores = 1, gene.num = 1, draw.num = 1000)

Arguments

model	An object of class modelorg indicating the weighted rescue model obtained from the rescue process.
mc.cores	The number of cores to use (at least 1), i.e. at most how many child processes will be run simultaneously. Default: 1.
gene.num	The number of genes to remove. If 1, oneGeneDel will be performed and draw.num will be ignored. Default: 1.
draw.num	The number of random draws. Default: 1000.

Value

A vector of weights for rescue reactions and an object of class phylo for colored plot of fitness weighting schema.

Examples

data(Ec_core)
mod <- rescue(Ec_core, target=0.1)
weightReacts(changeObjFunc(mod$rescue, react=rownames(mod$coef),
                          obj_coef=mod$coef))

metaboGSE documentation built on Oct. 23, 2020, 8:14 p.m.