as.RGData.MAData: Transform MA format into RG format

In HenrikBengtsson/aroma: An R Object-oriented Microarray Analysis package

Description

Transform from log ratios and intensities to the red and green intensities. Background fields are set to zero.

Usage

## S3 method for class 'MAData'
as.RGData(this, slides=NULL, ...)

Arguments

slides

Subset of slides to be returned. If NULL, all slides are returned.

Value

Returns a RGData object.

Author(s)

Henrik Bengtsson (http://www.braju.com/R/)

See Also

RGData.as.MAData. For more information see MAData.

Examples

  # The option 'dataset' is used to annotate plots.
  options(dataset="sma:MouseArray")

  SMA$loadData("mouse.data")
  layout <- Layout$read("MouseArray.Layout.dat", path=system.file("data-ex", package="aroma"))
  raw <- RawData(mouse.data, layout=layout)
  rg <- getSignal(raw, bgSubtract=TRUE)
  ma <- as.MAData(rg)
  rg2 <- as.RGData(ma)
  equal <- equals(rg, rg2)

HenrikBengtsson/aroma documentation built on May 7, 2019, 12:56 a.m.