Differentially Methylated Regions caller

Global functions | |
---|---|

DMRcaller | Man page |

DMRcaller-package | Man page |

DMRsNoiseFilterCG | Man page |

GEs | Man page |

analyseReadsInsideBins | Source code |

analyseReadsInsideBinsOneSample | Source code |

analyseReadsInsideBinsReplicates | Source code |

analyseReadsInsideRegions | Source code |

analyseReadsInsideRegionsForCondition | Man page Source code Source code |

analyseReadsInsideRegionsOneSample | Source code |

analyseReadsInsideRegionsReplicates | Source code |

computeAdjuestedPValues | Source code |

computeAdjuestedPValuesReplicates | Source code |

computeBetaReg | Source code |

computeBetaRegSingle | Source code |

computeDMRs | Man page Source code |

computeDMRsBins | Source code |

computeDMRsNeighbourhood | Source code |

computeDMRsNoiseFilter | Source code |

computeDMRsReplicates | Man page Source code |

computeDMRsReplicatesBins | Source code |

computeDMRsReplicatesNeighbourhood | Source code |

computeMethylationDataCoverage | Man page Source code |

computeMethylationDataSpatialCorrelation | Man page Source code Source code |

computeMethylationProfile | Man page Source code |

computeOverlapProfile | Man page Source code |

computeProportionsInDMRs | Source code |

computeaAjustedPValuesInDMRs | Source code |

computeaAjustedPValuesInDMRsReplicates | Source code |

convertProportions | Source code |

convertResult | Source code |

countCytosinesInside | Source code |

countMethylationDataCoverage | Source code |

countOverlaps | Source code |

countTotalNumberOfCytosines | Source code |

epanechnicovKernel | Source code |

extractGC | Man page Source code |

filterDMRs | Man page Source code |

fisherTest | Source code |

fisherTestPValue | Source code |

gaussianKernel | Source code |

getLongestDMRs | Source code |

getLongestDMRsReplicates | Source code |

getSumInRange | Source code |

getWholeChromosomes | Man page Source code |

joinDMRs | Source code |

joinDMRsReplicates | Source code |

joinMethylationData | Source code |

joinReplicates | Man page Source code |

measureOverlaps | Source code |

mergeDMRsIteratively | Man page Source code Source code |

mergeDMRsIterativelyReplicates | Source code |

mergeRegions | Source code |

methylationDataList | Man page |

movingAverage | Source code |

movingSum | Source code |

plotGeneticElements | Source code |

plotLocalMethylationProfile | Man page Source code |

plotMethylationDataCoverage | Man page Source code |

plotMethylationDataSpatialCorrelation | Man page Source code |

plotMethylationProfile | Man page Source code |

plotMethylationProfileFromData | Man page Source code |

plotOverlapProfile | Man page Source code |

poolMethylationDatasets | Man page Source code |

poolTwoMethylationDatasets | Man page Source code |

printGenomicRanges | Source code |

readBismark | Man page Source code |

readBismarkPool | Man page Source code |

sColor | Source code |

sInteger | Source code |

saveBismark | Man page Source code |

scoreTest | Source code |

smartMergeDMRs | Source code |

smartMergeDMRsReplicates | Source code |

splitGRangesEqualy | Source code |

stopIfNotAll | Source code |

suitableForBetaReg | Source code |

sumReadsM | Source code Source code |

sumReadsM1 | Source code |

sumReadsM2 | Source code |

sumReadsN | Source code Source code |

sumReadsN1 | Source code |

sumReadsN2 | Source code |

syntheticDataReplicates | Man page |

validateConditionReplicates | Source code |

validateContext | Source code |

validateGRanges | Source code |

validateMethylationData | Source code |

validateMethylationDataList | Source code |

validateMethylationProfile | Source code |

validateStatisticalTest | Source code |

validateStatisticalTestReplicates | Source code |

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