getFlag.MicroarrayData: Gets the indices of the spots flagged with a specific flag
In HenrikBengtsson/aroma: An R Object-oriented Microarray Analysis package

Description Usage Arguments Value Author(s) See Also Examples

Gets the indices of the spots flagged with a specific flag.

1 2	## S3 method for class 'MicroarrayData' getFlag(this, flag, slide=NULL, ...)

`flag`	The name of the flag.
`slide`	Slide(s) to be considered. If `NULL` all slides are considered.

Returns a vector of integers.

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

*setFlag(), *clearFlag(), *listFlags(), *getInclude(). For more information see MicroarrayData.

  SMA$loadData("mouse.data")
  layout <- Layout$read("MouseArray.Layout.dat", path=system.file("data-ex", package="aroma"))
  raw <- RawData(mouse.data, layout=layout)
  ma <- getSignal(raw)
  setFlag(ma, "|M|>1", abs(ma$M)>1)
  plot(ma)
  highlight(ma, "|M|>1", col="red")