inferInfiniumIChannel: Infer and reset color channel for Type-I probes instead of...

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

Infer and reset color channel for Type-I probes instead of using what is specified in manifest. The results are stored to sdf@extra$IGG and sdf@extra$IRR slot.

Description

IGG => Type-I green that is inferred to be green IRR => Type-I red that is inferred to be red

Usage

inferInfiniumIChannel(
  sdf,
  switch_failed = FALSE,
  mask_failed = FALSE,
  verbose = FALSE,
  summary = FALSE
)

Arguments

sdf	a SigDF
switch_failed	whether to switch failed probes (default to FALSE)
mask_failed	whether to mask failed probes (default to FALSE)
verbose	whether to print correction summary
summary	return summarized numbers only.

Value

a SigDF, or numerics if summary == TRUE

Examples

sdf <- sesameDataGet('EPIC.1.SigDF')
inferInfiniumIChannel(sdf)

zwdzwd/sesame documentation built on April 28, 2024, 12:48 p.m.