FilterEdges.SIMoNeNet: Filter edges in SIMoNeNet

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

Description

Function to filter on theta score or spearman's statistics in a SIMoNeNet object.

Usage

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

Arguments

x	Object of class SIMoNeNet
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. Can be "Rho", "P.Value" or "Theta".
Absolute	Boolean indicating whether the attribute must be transformed into absolute values before filtering
...	Additional parameters. Not used here

Value

Object of class SIMoNeNet with filtered edges

See Also

SIMoNeNet, SIMoNeNet.default, getSIMoNeNet, print.SIMoNeNet, summary.SIMoNeNet, export.SIMoNeNet, pickSIMoNeParam

Examples

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

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

# pickSIMoNeParam(GaussianSpAData)

# GlobalSIMoNeNet<-getSIMoNeNet(GaussianSpAData)
# GlobalSIMoNeNet<-FilterEdges(GlobalSIMoNeNet,0.4)
# print(GlobalSIMoNeNet,5)
# summary(GlobalSIMoNeNet)
# plot(GlobalSIMoNeNet)

# export(GlobalSIMoNeNet,"GlobalSIMoNeNet",T)

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