Man pages for RefFreeEWAS
EWAS using Reference-Free DNA Methylation Mixture Deconvolution
| BootOneRefFreeEwasModel | One Bootstrap sample for Reference-Free EWAS Model |
| BootRefFreeEwasModel | Bootstrap for Reference-Free EWAS Model |
| bootstrapPairs | One Bootstrap Sample for Pairs |
| deviance.RefFreeCellMix | deviance.RefFreeCellMix |
| EstDimIC | Dimension estimation by AIC and BIC |
| EstDimRMT | Dimension estimation by Random Matrix Theory |
| ImputeByMean | Simple imputation method based on row-mean |
| omnibusBoot | Bootstrap-based omnibus test of significance across all... |
| PairsBootOneRefFreeEwasModel | One Bootstrap Sample for Reference-Free EWAS Model,... |
| PairsBootRefFreeEwasModel | Bootstrap for Reference-Free EWAS Model, Accounting for... |
| print.BootRefFreeEwasModel | print.BootRefFreeEwasModel |
| print.RefFreeCellMix | print.RefFreeCellMix |
| print.RefFreeEwasModel | print.RefFreeEwasModel |
| print.summaryBootRefFreeEwasModel | print.summaryBootRefFreeEwasModel |
| projectMix | Cell Mixture Projection (reference-based) |
| RefFreeCellMix | Reference-Free Cell Mixture Projection |
| RefFreeCellMixArray | Initialize Reference-Free Cell Mixture Projection |
| RefFreeCellMixArrayDevianceBoot | RefFreeCellMixArrayDevianceBoot |
| RefFreeCellMixArrayDevianceBoots | RefFreeCellMixArrayDevianceBoots |
| RefFreeCellMixArrayWithCustomStart | Reference-Free Cell Mixture Projection - Custom... |
| RefFreeCellMixInitialize | Initialize Reference-Free Cell Mixture Projection |
| RefFreeCellMixInitializeBySVD | Initialize Reference-Free Cell Mixture Projection by SVD |
| 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... |
| rfEwasExampleTRUEMethDMR | True M matrix (cell-specific methylation values) used in... |
| rfEwasExampleTRUEOmega | True Omega (cell mixture) coefficients used in simulation... |
| summary.BootRefFreeEwasModel | summary.BootRefFreeEwasModel |
| summary.RefFreeCellMix | summary.RefFreeCellMix |
| svdSafe | Safe SVD-like matrix decomposition |
| SVDwithMissing | SVD with missing values |
| X.HNSCC.caseStatusAge | HNSCC Example - Covariates |
| Y.HNSCC.averageBetas | HNSCC Example - DNA Methylation Average Betas |
