| adaptRefQuantiles | Functions from 450-pipeline (Touleimat & Tost) |
| adjustedDasen | adjustedDasen |
| adjustedFunnorm | adjustedFunnorm |
| agep | Age Prediction from methylomic expression data |
| as.methylumi-methods | Methods for Function 'as.methylumi' |
| beadc | Calculates the number of samples with bead count <3 for each... |
| beadcount | Creates matrix of beacounts from minfi data. |
| Beta2M | Internal functions for peak.correction (fuks) |
| BMIQ | Beta-Mixture Quantile (BMIQ) Normalisation method for... |
| bscon | Calculate bisulphite conversion |
| canno | canno - process csv manifest into annotation object for... |
| colnames-methods | Methods for Function 'colnames' in Package 'wateRmelon' |
| combo | Combine MethyLumiSet objects |
| dasen | Calculate normalized betas from Illumina 450K methylation... |
| dasen-exprmethy450 | Calculate normalized betas from exprmethy450 of Illumina 450K... |
| dasen-MethyLumiSet | Calculate normalized betas from MethyLumiSets of Illumina... |
| dasen-MethySet | Calculate normalized betas from Illumina 450K methylation... |
| db1 | Internal wateRmelon functions for calculating betas |
| dmrse | Standard error of iDMR 450k array DNA methylation features |
| dmrse-methods | Methods for Function 'dmrse' in Package 'wateRmelon' |
| dot-createAnnotation | Internal function to guess correct pData and retrieve using... |
| dot-getManifestString | Internal functions for Illumina i450 normalization functions |
| epicv2clean.default | Strip and subset EPICv2 data to work with legacy data and... |
| estimateCellCounts.wmln | Cell Proportion Estimation using wateRmelon |
| estimateSex | Predict sex by using robust sex-related CpG sites on ChrX and... |
| genki | SNP derived performance metrics for Illumina 450K DNA... |
| genki-methods | Methods for Function 'genki' in Package 'wateRmelon' |
| genkme | Internal functions for genotype-based normalization metrics |
| got | Internal functions for Illumina i450 normalization functions |
| idet | idet - identify idats by a hash of the addresses |
| iDMR | Imprinting differentially methylated region probes of... |
| melon | Small MethyLumi data set for examples and testing |
| metrics | Calculate a full set of 450K normalization/performance... |
| NChannelSetToMethyLumiSet2 | For internal use, is read using minfi-like machinery and then... |
| outlyx | Identify Outliers within Methylumi and Minfi packaged objects |
| outlyx-methods | Methods for Function 'outlyx' in Package 'wateRmelon' |
| pfilter | Basic data filtering for Illumina 450 methylation data |
| pwod | Probe-Wise Outlier Detection |
| pwod-methods | Methods for Function 'pwod' in Package 'wateRmelon' |
| qual | A measure of Normalization Violence |
| readEPIC | readEPIC |
| read.manifest | read.manifest - read in csv format Illumina chip manifest... |
| readPepo | readPepo - read (any kind of) Illumina DNA methylation array... |
| seabi | Calculate a performance metric based on male-female... |
| seabi-methods | Methods for Function 'seabi' in Package 'wateRmelon' |
| seabird | Calculate ROC area-under-curve for X-chromosome sex... |
| sextest | Test Illumina methylation 450K array probes for sex... |
| smokp | Smoking Prediction from methylomic expression data |
| wateRmelon-package | Illumina 450K arrays: normalization and performance metrics |
| wm_internal | Internal functions for readEPIC and other wateRmelon... |
