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

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Documentation for package ‘Harman’ version 1.35.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

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
clusterStats	Compute LVR and meandiff statistics for beta values after batch correction
detachHarman	Detach the Harman package and its shared C/C++ library code
discoverClusteredMethylation	Discover clustered beta values
harman	Harman batch correction method
harmanresults	Harman results object
harmanScores	A Principal components prcomp function tweaked for Harman
kClusterMethylation	Cluster beta values with a set value for k
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.