Get gene regulatory network

This function will generate the final prediction of TF-gene network. It takes the TF-gene correlation, peak-TF binding prediction, and peak-to-gene links as input.

GetGRN(motif.matching = NULL, df.cor = NULL, df.p2g = NULL)

Arguments

motif.matching

A matrix of peak by motif to indicate if a peak is bound by a motif. This matrix should only contain 0 and 1 with 1 indicating a binding event and 0 indicating no binding site(s).

df.cor

A matrix of TF-gene correlation as generated by using the function GetTFGeneCorrelation.

df.p2g

A data frame containing predicted peak-to-gene links as generated by using the function PeakToGene.

Value

A data frame representing gene regulatory network