Intersect a BigWig file over loci on a GRanges object — .intersect_bw_and_granges • wigglescout

Intersect a BigWig file over loci on a GRanges object, taking npoints points per locus.

Usage

.intersect_bw_and_granges(
  bw,
  granges,
  npoints,
  ignore_strand = FALSE,
  default_na = NA_real_,
  scaling = "none"
)

Arguments

bw: BigWigFile object (rtracklayer).
granges: GRanges object.
npoints: How many points to take (different to bin size!).
ignore_strand: Ignore strand information in granges.
default_na: Value to use as default for missing values
scaling: none if no scaling is done, relative if scaled to global mean of 1

Value

A value matrix of dimensions len(granges) x npoints.