qualityDiagnostics {arrayMagic}R Documentation

Generates quality diagnostic plots

Description

Several quality diagnostic plots are generated. The distributions of the (normalised) intensities, as well as overall similarities between hybridisations and several other quality parameters are graphically visualised (cf. function qualityParameters).

Usage

qualityDiagnostics(arrayDataObject, exprSetRGObject, qualityParametersList, slideNameColumn, savePath=".", completeOutput=FALSE, verbose=TRUE, plotOutput="pdf")

Arguments

arrayDataObject arrayData-class; required; default: missing
exprSetRGObject exprSetRG-class; required, default: missing
qualityParametersList the return value of qualityParameters required; default: missing
slideNameColumn character string; optional; default: missing; specifies a column of pDataSlide(exprSetRGObject).
savePath character string; required; default: "."
completeOutput required; default: FALSE
verbose logical; required; default: TRUE
plotOutput character string specifying the output type; either "screen", "pdf" or "win.metafile"; default: "pdf"

Details

Value

The function is called for its side effect.

Author(s)

Andreas Buness <a.buness@dkfz.de>

See Also

qualityParameters, exprSetRG-class, arrayData-class

Examples

        

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