FilterEdges.FactorNetworks: Filter edges in FactorNetworks

In stringgaussnet: PPI and Gaussian Network Construction from Transcriptomic Analysis Results Integrating a Multilevel Factor

Description

Function to filter on edge attribute in an FactorNetworks object.

Usage

## S3 method for class 'FactorNetworks'
FilterEdges(x, Threshold, Superior = T, AttributeFilter = "Rho",
	Absolute = T, ...)

Arguments

x	An object of class FactorNetworks
Threshold	Threshold used to filter on edge attribute
Superior	Boolean variable indicating whether values must be superior or inferior to the threshold
AttributeFilter	Character indicating on which edge attribute to filter
Absolute	Boolean indicating whether the attribute must transformed into absolute values before filtering
...	Additional parameters. Not used here

Value

Object of class FactorNetworks with filtered edges

See Also

FactorNetworks, FactorNetworks.default, print.FactorNetworks

Examples

# data(SpADataExpression)
# data(SpADEGenes)
# data(SpASamples)
# SpAData<-DEGeneExpr(t(SpADataExpression),SpADEGenes)

# StatusFactor<-paste(SpASamples$status,SpASamples$b27,sep=".")
# names(StatusFactor)=SpASamples$chipnum

# NodesForSIMoNe<-rownames(SpADEGenes)[1:17]
# GaussianSpAData<-DEGeneExpr(t(SpADataExpression[NodesForSIMoNe,]),SpADEGenes[NodesForSIMoNe,])

# GlobalSIMoNeNetNF<-getSIMoNeNet(GaussianSpAData)
# GlobalSIMoNeNet<-FilterEdges(GlobalSIMoNeNetNF,0.4)

# StatusFactorSIMoNeNet<-FactorNetworks(GaussianSpAData,StatusFactor,"SIMoNe")
# StatusFactorSIMoNeNet<-FilterEdges(StatusFactorSIMoNeNet,0.4)

stringgaussnet documentation built on May 29, 2017, 10:50 a.m.