MiRSEA (version 1.1.1)

Corrp2miRfile: create a pathway-microRNA(miRNA) profile and a p value matrix

Description

The function Corrp2miRfile create a p value matrix and a pathway-miRNA correlation profile

Usage

Corrp2miRfile(pathway="kegg", species = "hsa")

Value

p

A p value weighted matrix (rows are pathway ,cols are miRNAs)

p2miR

pathway-miRNA correlation(pmSET) profile

Arguments

pathway

choose database of pathway,"kegg","biocarta" or"reactome"

species

Species of miRNAs(default: hsa)

Author

Junwei Han,Siyao Liu

Details

When users input interesting species and pathway, the function can calculate the p value between pathway and miRNA using hypergeometric.The p value can quantify the strength of the pathway regulated by each miRNA.The smaller p value is represent the bigger strength of regulate.Then p2m can get miRNA set(pmSET)for each pathway,which is a co-regulated miRNA set of this pathway(w>0).

References

Rivals I, Personnaz L, Taing L, & Potier MC (2007) Enrichment or depletion of a GO category within a class of genes: which test? (Translated from eng) Bioinformatics 23(4):401-407 (in eng).

See Also

MirSEA,MsReport

Examples

if (FALSE) {
p2m<-Corrp2miRfile(pathway="kegg", species = "example")

p2m$p[1,1:10]
p2m$p2miR[1,1:5]
}