getInteGraphList: Get the reconstructed signal pathway graphs

In SubpathwayLNCE: Identify Signal Subpathways Competitively Regulated by LncRNAs Based on ceRNA Theory

Description

Get the reconstructed KEGG signal pathway graphs embedded by lncRNAs of competitive regulation.

Usage

getInteGraphList(graphList,relations)

Arguments

graphList	A graphList. There nodes must be represented by genes.
relations	A data frame. It contains two columns, the first is lncRNA names and the second is its target names.

Details

The argument "relations" represents user-interested lncRNA-target interactions, which can be returned from the GetExampleData.

Value

A graph list.

Author(s)

Xinrui Shi, Chunquan Li and Xia Li

See Also

plotGraphL, getLocSubGraphLnc, GetExampleData

Examples

## Not run: 
### Integrate lncRNAs of competitive regulation into KEGG pathway graphs ###
  LncGenePairs<-GetExampleData(exampleData="LncGenePairs")
  g2<-GetExampleData(exampleData="g2")
  interUMGraph<-getInteGraphList(g2,LncGenePairs)
  #interUMGraph<-getInteUMGraph(LncGenePairs)
### get user-interested lncRNAs and genes sets.
  #geneLnc<-GetExampleData(exampleData="geneLnc")
# get locate subpathways.
  #sub<-getLocSubGraphLnc(geneLnc,interUMGraph,type="gene_lncRNA",n=1,s=8)
  #SubcodeLncResult<-identifyLncGraphW(geneLnc,sub,type="gene_lncRNA",bet=1)
  #resultT<-printGraphW(SubcodeLncResult,detail=TRUE)

 
## End(Not run)

SubpathwayLNCE documentation built on May 1, 2019, 10:25 p.m.