computeNucleosomeEnrichmentOverBackground: Internal function

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

Internal function

Description

A function to compute nucleosome enrichment of a Vmat

Usage

computeNucleosomeEnrichmentOverBackground(
  Vmat,
  background = NULL,
  plus1_nuc_only = FALSE,
  minus1_nuc = list(c(xmin = -150, xmax = -70), c(ymin = 165, ymax = 260)),
  minus1_nuc_neg = list(c(xmin = -150, xmax = -70), c(ymin = 60, ymax = 145)),
  plus1_nuc = list(c(xmin = 70, xmax = 150), c(ymin = 165, ymax = 260)),
  plus1_nuc_neg = list(c(xmin = 70, xmax = 150), c(ymin = 50, ymax = 145)),
  ...
)

Arguments

Vmat	A Vmat computed by nucleosomeEnrichment function
background	a background Vmat
plus1_nuc_only	Boolean Should compute nucleosome enrichment only for +1 nucleosome?
minus1_nuc	list where the -1 nucleosome is located
minus1_nuc_neg	where the background of the -1 nucleosome is located
plus1_nuc	where the +1 nucleosome is located
plus1_nuc_neg	where the background of the +1 nucleosome is located
...	additional parameters

Value

list

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