plmPlate: Plot affyPLM QC images on a grid respecting the plate...

In titanQC: QC Procedures for the GeneTitan platform

Description

Plot affyPLM QC images on a grid respecting the plate layout

Usage

plmPlate(x, celFilePositions, type="resids", use.log=TRUE, standardize=FALSE,
    col, addSampleName=FALSE, sampleNameAffix="")

Arguments

x	object of class 'PLMset' as produced by 'fitPLM' of the 'affyPLM' package
celFilePositions	dataframe as produced by getCelFilePosition; this data frame provides all necessary information on location on the plate of the samples
type	type of residuals to plot; currently only type 'resids' is supported
use.log	logical; defaults to TRUE
standardize	logical; see PLMset-class
col	color palette to use for the coloring of residuals; if NULL (default) the coloring of the affyPLM package is used (pseudoPalette)
addSampleName	add the sample names on top of each single well image for the plate; defaults to FALSE
sampleNameAffix	affix used to comply with a legacy application where '.CEL' is added to each sample name, defaults to ” in which case sample names are expected to be the CEL file names (without the .CEL extension)

Value

no return value; a graph is drawn to the current device

Note

currently only type 'resids' from the affyPLM package is supported

Author(s)

Code from the image methods of the affyPLM package by Ben Bolstad, adapted to titan QC purposes by Tobias Verbeke

References

TODO

See Also

PLMset-class

titanQC documentation built on May 2, 2019, 5:55 p.m.