SubpathwayLNCE (version 1.0)

getLncGenePairs: Get the co-express lncRNA-mRNA interactions

Description

Get the co-express lncRNA-mRNA interactions reached a significant positive threshold. These lncRNAs-mRNAs pairs are competitivly rugulated.

Usage

getLncGenePairs(GeneExp,LncExp,a=0.025)

Arguments

GeneExp

A gene expression profile. The first row of gene expression profile is names of mRNA, and the gene expression profile and the lncRNA expression profile must be mached.

LncExp

A lncRNA expression profile. The first row of lncRNA expression profile is names of lncRNA, and the gene expression profile and the lncRNA expression profile must be mached.

a

A parameter,namely the significant positive threshold.

Value

A data frame. The data frame has two columns, the fist is lncRNA names, the other is mRNA names.

Details

Co-express coefficient for any pair of relations in the candidate LncRNA-mRNA network is calculated basing on matched LncRNA and mRNA expression profiles, those relations had reached a significant positive threshold were retained.

Examples

## Not run: 
# 
# 
#  GeneExp<-GetExampleData(exampleData="GeneExp")
#  LncExp<-GetExampleData(exampleData="LncExp")
#  LncGenePairs<-getLncGenePairs(GeneExp,LncExp,a=0.025)
#  ## End(Not run)