Man pages for chromVAR
Chromatin Variation Across Regions
| addGCBias | addGCBias |
| annotationMatches | annotationMatches |
| assembleKmers | assembleKmers |
| cbind-chromVARDeviations-method | cbind method for chromVARDeviations |
| chromVAR | chromVAR: A package for computing variability across sets of... |
| chromVARDeviations-class | chromVARDeviations |
| chromVAR_theme | chromVAR_theme |
| computeDeviations | computeDeviations |
| computeExpectations | computeExpectations |
| computeVariability | computeVariability |
| counts | Accessors for the 'counts' slot of a SummarizedExperiment |
| deviations | deviations |
| deviationScores | deviationScores |
| deviationsCovariability | deviationsCovariability |
| deviationsTsne | deviationsTsne |
| differentialDeviations | differentialDeviations |
| differentialVariability | differentialVariability |
| example_counts | example_counts |
| filterPeaks | filterPeaks |
| filterSamples | filterSamples |
| filterSamplesPlot | filterSamplesPlot |
| getAnnotationCorrelation | getAnnotationCorrelation |
| getAnnotations | getAnnotations |
| getAnnotationSynergy | getAnnotationSynergy |
| getBackgroundPeaks | getBackgroundPeaks |
| getCisGroups | getCisGroups |
| getCounts | getCounts |
| getFragmentsPerPeak | getFragmentsPerPeak |
| getFragmentsPerSample | getFragmentsPerSample |
| getJasparMotifs | getJasparMotifs |
| getPeaks | getPeaks |
| getPermutedData | getPermutedData |
| getSampleCorrelation | getSampleCorrelation |
| getSampleDepths | getSampleDepths |
| getSampleDistance | getSampleDistance |
| getTotalFragments | getTotalFragments |
| makeBiasBins | makeBiasBins |
| makePermutedSets | makePermutedSets |
| matchKmers | matchKmers |
| mini_counts | mini_counts |
| mini_dev | mini_dev |
| mini_ix | mini_ix |
| plotDeviationsTsne | plotDeviationsTsne |
| plotKmerMismatch | plotKmerMismatch |
| plotVariability | plotVariability |
| pwmDistance | pwmDistance |
| rbind-chromVARDeviations-method | rbind method chromVARDeviations |
| readNarrowpeaks | readNarrowpeaks |
