Normalization Procedure for Infinium HumanMethylation450
BeadChip Kit
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Documentation for package ‘funtooNorm’ version 1.24.0
Help Pages
| funtooNorm-package | funtooNorm |
| agreement | Function to measure intra-replicate agreement for methylation data. |
| fromGenStudFiles | Creates a S4 object of class 'SampleSet' from GenomeStudio files |
| fromRGChannelSet | Creates an object of class SampleSet from a RGChannelSet minfi |
| funtooNorm | The funtooNorm normalization function |
| funtooNorm-method | The funtooNorm normalization function |
| getGRanges | Build GRange object of methylation probes |
| getGRanges-method | Build GRange object of methylation probes |
| getNormBeta | Computes Beta values from normalized signals |
| getNormBeta-method | Computes Beta values from normalized signals |
| getNormM | Computes M values,log2(Meth/Unmeth), from normalized signals |
| getNormM-method | Computes M values,log2(Meth/Unmeth), from normalized signals |
| getRawBeta | Computes Beta value from raw signals |
| getRawBeta-method | Computes Beta value from raw signals |
| getSnpM | Computes M values after normalization of SNP data. |
| getSnpM-method | Computes M values after normalization of SNP data. |
| plotValidationGraph | plot of Validation Graph for determing number of components |
| plotValidationGraph-method | plot of Validation Graph for determing number of components |
| SampleSet-class | S4 class object SampleSet |
| show-method | Show Object SampleSet |