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