plotFootprint: A function to plot footprint of paired-end data at given loci

In js2264/VplotR: Set of tools to make V-plots and compute footprint profiles

A function to plot footprint of paired-end data at given loci

Description

This function takes paired-end fragments, extract the "cuts" (i.e. extremities) and plot the footprint profile over a set of GRanges.

Usage

plotFootprint(
  frags,
  targets,
  split_strand = FALSE,
  plot_central = TRUE,
  xlim = c(-75, 75),
  bin = 1,
  verbose = 1
)

Arguments

frags	GRanges, the paired-end fragments
targets	GRanges, the loci to map the fragments onto
split_strand	Boolean, should the + and - strand be splitted?
plot_central	plot grey rectangle over the loci
xlim	numeric vector of length 2, the x limits of the computed Vmat
bin	Integer, bin used to smooth the gootprint profile
verbose	Integer

Value

A footprint ggplot

Examples

data(bam_test)
data(ce11_proms)
plotFootprint(bam_test, ce11_proms)

js2264/VplotR documentation built on Jan. 4, 2024, 7:49 p.m.