genExprSet |
Generate an ExpressionSet object |
genSimData.BayesNormal |
Generating simulated data set from conditional normal distributions |
getPCAFunc |
Get principal components of arrays |
glmWrapper |
Perform glm test for all gene probes |
lkhrWrapper |
Perform glm test for all gene probes |
lmFitPaired |
A wrapper function for the function 'lmFit' of the R Bioconductor package 'limma' for paired data |
lmFitWrapper |
A wrapper function for the function 'lmFit' of the R Bioconductor package 'limma' |
LumiBatch2Table |
Output slots (exprs, pData, fData) of an LumiBatch object into 3 text files |
pca2DPlot |
Scatter plot of first 2 principal components |
pca3DPlot |
Scatter plot of 3 specified principal components |
plotCurves |
Plot trajectories of probe profiles across arrays |
plotQCCurves |
Plot trajectories of specific QC probes (e.g., biotin, cy3_hyb, housekeeping gene probes, low stringency probes, etc.) across arrays |
plotSamplep95p05 |
Plot trajectories of the ratio of 95th percentile to 5th percentile of sample probe profiles across arrays |
quantilePlot |
Plot trajectories of quantiles across arrays |
R2PlotFunc |
Draw heatmap of square of correlations among arrays |
sortExpressionSet |
Sort the order of samples for an ExpressionSet object |