The removal of batch effects from datasets using a PCA and constrained optimisation based technique


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Documentation for package ‘Harman’ version 1.10.0

Help Pages

.callHarman Wrapper function to call the shared C/C++ library code
arrowPlot PCA before and after arrow plot for harman results
callHarman Wrapper function to call the shared C/C++ library code
detachHarman Detach the Harman package and its shared C/C++ library code
harman Harman batch correction method
harmanresults Harman results object
harmanScores A Principal components prcomp function tweaked for Harman
pcaPlot PCA plot for harman results
plot.harmanresults Plot method for harman
prcompPlot PCA plot
print.summary.harmanresults Printing Harmanresults summaries.
reconstructData Reconstruct corrected data from Harman results
shiftBetas Shift beta values from 0 and 1 to avoid infinite M values
summary.harmanresults Summarizing harman results.