Pearson: miRNA target prediction with the Pearson correlation...

In miRLAB: Dry lab for exploring miRNA-mRNA relationships

Description

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

Usage

Pearson(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 Pearson correlation coefficients. Columns are miRNAs, rows are mRNAs.

References

Pearson, K. (1920) Notes on the history of correlation. Biometrika, 13, 25 - 45.

Examples

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

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