Differentially Methylated Regions caller
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Documentation for package ‘DMRcaller’ version 1.39.0
Help Pages
| DMRcaller-package | Call Differentially Methylated Regions (DMRs) between two samples |
| analyseReadsInsideRegionsForCondition | Analyse reads inside regions for condition |
| computeDMRs | Compute DMRs |
| computeDMRsReplicates | Compute DMRs |
| computeMethylationDataCoverage | Compute methylation data coverage |
| computeMethylationDataSpatialCorrelation | Compute methylation data spatial correlation |
| computeMethylationProfile | Compute methylation profile |
| computeOverlapProfile | Compute Overlaps Profile |
| DMRcaller | Call Differentially Methylated Regions (DMRs) between two samples |
| DMRsNoiseFilterCG | The DMRs between WT and met1-3 in CG context |
| extractGC | Extract GC |
| filterDMRs | Filter DMRs |
| GEs | The genetic elements data |
| getWholeChromosomes | Get whole chromosomes from methylation data |
| joinReplicates | Joins together two GRange objects in a single containing all the replicates |
| mergeDMRsIteratively | Merge DMRs iteratively |
| methylationDataList | The methylation data list |
| plotLocalMethylationProfile | Plot local methylation profile |
| plotMethylationDataCoverage | Plot methylation data coverage |
| plotMethylationDataSpatialCorrelation | Plot methylation data spatial correlation |
| plotMethylationProfile | Plot Methylation Profile |
| plotMethylationProfileFromData | Plot methylation profile from data |
| plotOverlapProfile | Plot overlap profile |
| poolMethylationDatasets | Pool methylation data |
| poolTwoMethylationDatasets | Pool two methylation datasets |
| readBismark | Read Bismark |
| readBismarkPool | Read Bismark pool |
| saveBismark | Save Bismark |
| syntheticDataReplicates | Simulated data for biological replicates |