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| ChIPseeker-package | ChIP-SEQ Annotation, Visualization and Comparison |
| addGeneAnno | addGeneAnno |
| annotatePeak | annotatePeak |
| ChIPseeker | ChIP-SEQ Annotation, Visualization and Comparison |
| downloadGEObedFiles | downloadGEObedFiles |
| downloadGSMbedFiles | downloadGSMbedFiles |
| enrichAnnoOverlap | enrichAnnoOverlap |
| enrichPeakOverlap | enrichPeakOverlap |
| getGenomicAnnotation | getGenomicAnnotation |
| getGEOgenomeVersion | getGEOgenomeVersion |
| getGEOInfo | getGEOInfo |
| getGEOspecies | getGEOspecies |
| getNearestFeatureIndicesAndDistances | getNearestFeatureIndicesAndDistances |
| getPromoters | getPromoters |
| getSampleFiles | getSampleFiles |
| getTagMatrix | getTagMatrix |
| gsminfo | Information Datasets |
| info | Information Datasets |
| overlap | overlap |
| peakHeatmap | peakHeatmap |
| plotAnnoBar | plotAnnoBar |
| plotAnnoPie | plotAnnoPie |
| plotAvgProf | plotAvgProf |
| plotAvgProf2 | plotAvgProf |
| plotChrCov | plotChrCov |
| plotDistToTSS | plotDistToTSS |
| readPeakFile | readPeakFile |
| shuffle | shuffle |
| tagHeatmap | tagHeatmap |
| tagMatrixList | Information Datasets |
| ucsc_release | Information Datasets |
| vennplot | vennplot |
| vennplot.peakfile | vennplot.peakfile |