stringgaussnet (version 1.1)

FilterEdges.ShortPathSTRINGNet: Filter edges in ShortPathSTRINGNet

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)