scoreGeneDel: Structure of Class "scoreGeneDel"

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

Description

Structure of the class scoreGeneDel. Objects of this class are returned by the function submnet.

Usage

scoreGeneDel(
  model = NULL,
  condition = NA,
  fitness.random = NULL,
  fitness.ranks = NULL,
  fitness.id.random = NULL,
  fitness.id.ranks = NULL,
  ess.gene = NULL,
  ess.reaction = NULL,
  gene.del = NULL,
  gene.sets = NULL,
  ratio.GS = NULL,
  sub.genes = NULL,
  sub.reacs = NULL,
  sub.metas = NULL,
  rescue.met = NULL
)

Arguments

model	An object of class modelorg indicating the weighted rescue model obtained from the rescue process.
condition	The experimental condition ID.
fitness.random	Random-based fitness with weighting scheme.
fitness.ranks	Ranks-based fitness with weighting scheme.
fitness.id.random	Random-based fitness without weighting scheme.
fitness.id.ranks	Ranks-based fitness without weighting scheme.
ess.gene	Percentages of essential genes. The computation of essentiality is deprecated in this version.
ess.reaction	Percentages of essential reactions. The computation of essentiality is deprecated in this version.
gene.del	Number of deleted genes.
gene.sets	Gene sets.
ratio.GS	Percentages of remaining genes in each gene set.
sub.genes	Remaining genes in submodels after propagation.
sub.reacs	Remaining reactions in submodels after propagation.
sub.metas	Remaining metabolites in submodels after propagation.
rescue.met	Fraction of every rescued metabolite among random draws.

Value

An object of class scoreGeneDel.

Examples

data(yarliSubmnets)
attributes(yarliSubmnets[[1]])

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