A function to compute Vmat.

A function to compute Vmat.

computeVmat(reads.granges, target.granges, XAXIS.CUTOFF = 1000,
  YAXIS.CUTOFF = 1000, stranded = TRUE)

Arguments

reads.granges

GRanges. The paired-end fragments
target.granges

GRanges. The regions to map the fragments onto
XAXIS.CUTOFF

single integer. The x limits (-/+) of the computed Vmat
YAXIS.CUTOFF

single integer. The y upper limit of the computed Vmat
stranded

Boolean. Should the Vmat be stranded? If TRUE, negative-strand features are flipped.

Value

A table object