RDC: miRNA target prediction with the Randomized Dependence...

In miRLAB: Dry lab for exploring miRNA-mRNA relationships

Description

Calculate the Randomized Dependence coefficient of each pair of miRNA-mRNA,and return a matrix of coefficients with columns are miRNAs and rows are mRNAs.

Usage

RDC(datacsv, cause, effect, targetbinding = NA)

Arguments

datacsv	the input dataset in csv format
cause	the column range that specifies the causes (miRNAs), e.g. 1:35
effect	the column range that specifies the effects (mRNAs), e.g. 36:2000
targetbinding	the putative target, e.g. "TargetScan.csv". If targetbinding is not specified, only expression data is used. If targetbinding is specified, the prediction results using expression data with be intersected with the interactions in the target binding file.

Value

A matrix that includes the correlation coefficients. Columns are miRNAs, rows are mRNAs.

Examples

dataset=system.file("extdata", "ToyEMT.csv", package="miRLAB")
results=RDC(dataset, 1:3, 4:18) 

miRLAB documentation built on Nov. 8, 2020, 5:45 p.m.