sesameQC_plotIntensVsBetas: Plot Total Signal Intensities vs Beta Values This plot is...

In zwdzwd/sesame: SEnsible Step-wise Analysis of DNA MEthylation BeadChips

Plot Total Signal Intensities vs Beta Values This plot is helpful in revealing the extent of signal background and dye bias.

Description

Plot Total Signal Intensities vs Beta Values This plot is helpful in revealing the extent of signal background and dye bias.

Usage

sesameQC_plotIntensVsBetas(
  sdf,
  mask = TRUE,
  use_max = FALSE,
  intens.range = c(5, 15),
  pal = "whiteturbo",
  ...
)

Arguments

sdf	a SigDF
mask	whether to remove probes that are masked
use_max	to use max(M,U) or M+U
intens.range	plot range of signal intensity
pal	color palette, whiteturbo, whiteblack, whitejet
...	additional arguments to smoothScatter

Value

create a total signal intensity vs beta value plot

Examples

sesameDataCache() # if not done yet
sdf <- sesameDataGet('EPIC.1.SigDF')
sesameQC_plotIntensVsBetas(sdf)

zwdzwd/sesame documentation built on Dec. 21, 2024, 1:20 p.m.