FilterEdges.ShortPathSTRINGNet: Filter edges in ShortPathSTRINGNet

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

Description

Function to filter on edge distance or number of intermediates in a ShortPathSTRINGNet object.

Usage

## S3 method for class 'ShortPathSTRINGNet'
FilterEdges(x, Threshold, AttributeFilter = "Distance", ...)

Arguments

x	Object of class ShortPathSTRINGNet
Threshold	Maximum threshold used to filter on edge attributes
AttributeFilter	Character indicating on which edge attribute to filter. Can be "Distance" or "NIntermediates".
...	Additional parameters. Not used here

Value

Object of class ShortPathSTRINGNet with filtered edges.

See Also

FilterEdges, FilterEdges.SIMoNeNet, FilterEdges.FactorNetworks

Examples

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

# SpASTRINGNet<-getSTRINGNet(SpAData)
# Can be longer.

# SpASTRINGNet<-getSTRINGNet(SpAData,AddAnnotations=FALSE)
# print(SpASTRINGNet,5)
# summary(SpASTRINGNet)
# PPISpASTRINGNet<-selectInteractionTypes(SpASTRINGNet,
#	c("coexpression","experimental","knowledge"),0.9)

# shortPathSpANet<-getShortestPaths(PPISpASTRINGNet)
# shortPathSpANet<-FilterEdges(shortPathSpANet,2.2)
# print(shortPathSpANet,5)
# summary(shortPathSpANet)

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