PAA (Protein Array Analyzer)


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Documentation for package ‘PAA’ version 1.3.3

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batchAdjust Adjust microarray data for batch effects.
batchFilter Remove differential features regarding array batches/lots.
diffAnalysis Differential analysis.
loadGPR A function to read raw data from gpr files.
mMsMatrix Compute a reference minimum M statistic (n1 x n2)-matrix.
normalizeArrays Normalize microarray data.
plotFeatures Plot intensities of selected features.
plotFeaturesHeatmap Plot feature intensities as a heatmap.
plotMAPlots Check normalization results with MA plots.
plotNormMethods Check normalization results with boxplots.
preselect Score and preselect features.
printFeatures Print biomarker candidate panel into a table.
pvaluePlot Draw a p-value plot.
selectFeatures Select features using frequency-based or ensemble feature selection.
shuffleData Shuffles class labels to obtain random groups.
volcanoPlot Draw a volcano plot.