An R package to detect chromatin state switches from epigenomic
data
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Documentation for package ‘chromswitch’ version 1.22.0
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| chromswitch-package | chromswitch: An R package for detecting chromatin state switches |
| binarizePeaks | binarizePeaks |
| callBinary | callBinary |
| callSummary | callSummary |
| chromswitch | chromswitch: An R package for detecting chromatin state switches |
| classEntropy | classEntropy |
| cluster | cluster |
| clusterEntropy | clusterEntropy |
| completeness | completeness |
| conditionalClassEntropy | classEntropyGivenClusters |
| conditionalClusterEntropy | clusterEntropyGivenClasses |
| coordToGRanges | coordToGRanges |
| filterPeaks | filterPeaks |
| GRangesToCoord | GRangesToCoord |
| H3K4me3 | H3K4me3 peak calls in a short region for six adult tissues |
| homogeneity | homogeneity |
| LocalPeaks | LocalPeaks |
| LocalPeaks-class | LocalPeaks |
| makeBrowserCoord | makeBrowserCoord |
| NMI | NMI |
| normalizePeaks | normalizePeaks |
| peaks | LocalPeaks |
| peaks-method | LocalPeaks |
| pReciprocalOverlap | pReciprocalOverlap |
| purity | purity |
| readNarrowPeak | readNarrowPeak |
| reducePeaks | reducePeaks |
| region | LocalPeaks |
| region-method | LocalPeaks |
| retrievePeaks | retrievePeaks |
| samples | LocalPeaks |
| samples-method | LocalPeaks |
| summarizePeaks | summarizePeaks |
| vMeasure | vMeasure |
| winsorNorm | winsorNorm |
| \S4method{peaks}{LocalPeaks} | LocalPeaks |
| \S4method{region}{LocalPeaks} | LocalPeaks |
| \S4method{samples}{LocalPeaks} | LocalPeaks |