EWAS using reference-Free DNA methylation mixture deconvolution

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Documentation for package ‘RefFreeEWAS’ version 1.3

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BootOneRefFreeEwasModel One Bootstrap sample for Reference-Free EWAS Model
BootRefFreeEwasModel Bootstrap for Reference-Free EWAS Model
bootstrapPairs One Bootstrap Sample for Pairs
EstDimIC Dimension estimation by AIC and BIC
omnibusBoot Bootstrap-based omnibus test of significance across all features
PairsBootOneRefFreeEwasModel One Bootstrap Sample for Reference-Free EWAS Model, Accounting for Paired Data
PairsBootRefFreeEwasModel Bootstrap for Reference-Free EWAS Model, Accounting for Paired Data
print.BootRefFreeEwasModel print.BootRefFreeEwasModel
print.RefFreeEwasModel print.RefFreeEwasModel
print.summaryBootRefFreeEwasModel print.summaryBootRefFreeEwasModel
RefFreeEwasModel Reference-Free EWAS Model
rfEwasExampleBetaValues Simulated mixed-cell DNA methylation data set
rfEwasExampleCovariate Simulated covariate for mixed-cell DNA methylation data set
rfEwasExampleTRUEAlpha True alpha intercepts used in simulation
rfEwasExampleTRUEBeta True beta coefficients used in simulation (for comparison purposes)
rfEwasExampleTRUEMethDMR True M matrix (cell-specific methylation values) used in simulation (for comparison purposes)
rfEwasExampleTRUEOmega True Omega (cell mixture) coefficients used in simulation (for comparison purposes)
summary.BootRefFreeEwasModel summary.BootRefFreeEwasModel
svdSafe Safe SVD-like matrix decomposition