.                       .
.ChIPseekerEnv          env function for ChIPseeker
ChIPseekerCache         Name of the ChIPseeker cache environment
                        (internal static variable)
annotatePeak            annotatePeak
as.GRanges              as.GRanges
as.data.frame.csAnno    as.data.frame.csAnno
check_upstream_and_downstream
                        check upstream and downstream parameter
combine_csAnno          combine_csAnno
covplot                 covplot
csAnno-class            Class "csAnno" This class represents the output
                        of ChIPseeker Annotation
downloadGEObedFiles     downloadGEObedFiles
downloadGSMbedFiles     downloadGSMbedFiles
dropAnno                dropAnno
enrichAnnoOverlap       enrichAnnoOverlap
enrichPeakOverlap       enrichPeakOverlap
getAnnoStat             getAnnoStat
getBioRegion            getBioRegion
getGEOInfo              getGEOInfo
getGEOgenomeVersion     getGEOgenomeVersion
getGEOspecies           getGEOspecies
getGeneAnno             getGeneAnno
getGenomicAnnotation    getGenomicAnnotation
getNearestFeatureIndicesAndDistances
                        getNearestFeatureIndicesAndDistances
getPromoters            getPromoters
getSampleFiles          getSampleFiles
getTagMatrix            getTagMatrix
getTagMatrix.binning.internal
                        getTagMatrix.binning.internal
getTagMatrix.internal   getTagMatrix.internal
getTagMatrix2           getTagMatrix2
getTagMatrix2.binning.internal
                        internal function
getTagMatrix2.internal
                        getTagMatrix2.internal
info                    Information Datasets
makeBioRegionFromGranges
                        makeBioRegionFromGranges
make_label              make label for figures
overlap                 overlap
peakHeatmap             peakHeatmap
peakHeatmap_multiple_Sets
                        peakHeatmap
peak_Profile_Heatmap    peak_Profile_Heatmap
plotAnnoBar             plotAnnoBar method generics
plotAnnoBar.data.frame
                        plotAnnoBar.data.frame
plotAnnoPie             plotAnnoPie method generics
plotAnnoPie.csAnno      plotAnnoPie
plotAvgProf             plotAvgProf
plotAvgProf.binning     plotAvgProf.binning
plotAvgProf2            plotAvgProf
plotDistToTSS           plotDistToTSS method generics
plotDistToTSS.data.frame
                        plotDistToTSS.data.frame
plotMultiProf           internal function for plotPeakProf_MultiWindows
plotMultiProf.binning   internal function
plotMultiProf.binning.internal
                        internal function
plotMultiProf.normal    internal function
plotMultiProf.normal.internal
                        internal function
plotPeakProf            plotPeakProf_MultiWindows
plotPeakProf2           plotPeakProf2
plotPeakProf_MultiWindows
                        plotPeakProf_MultiWindows
readPeakFile            readPeakFile
seq2gene                seq2gene
show                    show method
shuffle                 shuffle
tagHeatmap              tagHeatmap
upsetplot               upsetplot method
vennpie                 vennpie method generics
vennplot                vennplot
vennplot.peakfile       vennplot.peakfile
