$.CELL_META             Easy to way to get meta data in the current
                        cell
CELL_META               Easy way to get meta data in the current cell
add_transparency        Add transparency to colors
adjacencyList2Matrix    Convert adjacency list to an adjacency matrix
adjacencyMatrix2List    Convert adjacency matrix to an adjacency list
arrange_links_evenly    Arrange links evenly on each sector
calc_gap                Calculate gaps to make two Chord diagrams in
                        the same scale
chordDiagram            Plot Chord Diagram
chordDiagramFromDataFrame
                        Plot Chord Diagram from a data frame
chordDiagramFromMatrix
                        Plot Chord Diagram from an adjacency matrix
circlize                Convert to polar coordinate system
circlize-package        Circular visualization in R
circos.arrow            Draw arrow which is paralle to the circle
circos.axis             Draw x-axis
circos.barplot          Draw barplots
circos.boxplot          Draw boxplots
circos.clear            Reset the circular layout parameters
circos.connect          Draw connecting lines/ribons between two sets
                        of points
circos.dendrogram       Add circular dendrograms
circos.genomicAxis      Add genomic axes
circos.genomicDensity   Calculate and add genomic density track
circos.genomicHeatmap   Add heatmaps for selected regions
circos.genomicIdeogram
                        Add an ideogram track
circos.genomicInitialize
                        Initialize circular plot with any genomic data
circos.genomicLabels    Add labels to specified genomic regions
circos.genomicLines     Add lines to a plotting region, specifically
                        for genomic graphics
circos.genomicLink      Add links from two sets of genomic positions
circos.genomicPoints    Add points to a plotting region, specifically
                        for genomic graphics
circos.genomicPosTransformLines
                        Add genomic position transformation lines
                        between tracks
circos.genomicRainfall
                        Genomic rainfall plot
circos.genomicRect      Draw rectangle-like grid, specifically for
                        genomic graphics
circos.genomicText      Draw text in a cell, specifically for genomic
                        graphics
circos.genomicTrack     Create a track for genomic graphics
circos.genomicTrackPlotRegion
                        Create a track for genomic graphics
circos.heatmap          Make circular heatmaps
circos.heatmap.initialize
                        Initialize circular heatmaps
circos.heatmap.link     Draw a link between two matrix rows in the
                        circular heatmap
circos.info             Get information of the circular plot
circos.initialize       Initialize the circular layout
circos.initializeCircularGenome
                        Initialize a layout for circular genome
circos.initializeWithIdeogram
                        Initialize the circular layout with an ideogram
circos.labels           Add a label track
circos.lines            Add lines to the plotting region
circos.link             Draw links between points or/and intervals
circos.nested           Nested zooming with two circular plots
circos.par              Parameters for the circular layout
circos.points           Add points to a plotting region
circos.polygon          Draw polygon
circos.raster           Add raster images
circos.rect             Draw rectangle-like grid
circos.segments         Draw segments through pairwise of points
circos.text             Draw text in a cell
circos.track            Create plotting regions for a whole track
circos.trackHist        Draw histogram in cells among a whole track
circos.trackLines       Add lines to the plotting regions in a same
                        track
circos.trackPlotRegion
                        Create plotting regions for a whole track
circos.trackPoints      Add points to the plotting regions in a same
                        track
circos.trackText        Draw text in cells among the whole track
circos.triangle         Draw triangles
circos.update           Create plotting regions for a whole track
circos.updatePlotRegion
                        Update the plotting region in an existed cell
circos.violin           Draw violin plots
circos.xaxis            Draw x-axis
circos.yaxis            Draw y-axis
cm_h                    Convert units
cm_x                    Convert unit on x direction in data coordinate
cm_y                    Convert unit on y direction in data coordinate
col2value               Transform back from colors to values
colorRamp2              Color interpolation
convert_height          Convert units
convert_length          Convert units
convert_x               Convert unit on x direction in data coordinate
convert_y               Convert unit on y direction in data coordinate
cytoband.col            Assign colors to cytogenetic band (hg19)
                        according to the Giemsa stain results
degree                  Mark the value as a degree value
draw.sector             Draw sectors or rings in a circle
fontsize                Convert fontsize to cex
generateRandomBed       Generate random genomic data
genomicDensity          Calculate genomic region density
get.all.sector.index    Get index for all sectors
get.all.track.index     Get index for all tracks
get.cell.meta.data      Get the meta data of a cell
get.current.chromosome
                        Get current chromosome name
get.current.sector.index
                        Get current sector index
get.current.track.index
                        Get current track index
getI                    Which data that 'panel.fun' is using
get_most_inside_radius
                        Get the inside radius of the most inner track
highlight.chromosome    Highlight chromosomes
highlight.sector        Highlight sectors and tracks
inch_h                  Convert units
inch_x                  Convert unit on x direction in data coordinate
inch_y                  Convert unit on y direction in data coordinate
inches_h                Convert units
inches_x                Convert unit on x direction in data coordinate
inches_y                Convert unit on y direction in data coordinate
mm_h                    Convert units
mm_x                    Convert unit on x direction in data coordinate
mm_y                    Convert unit on y direction in data coordinate
names.CELL_META         Names of all meta data in the current cell
posTransform.default    Genomic position transformation function
posTransform.text       Genomic position transformation function
                        specifically for text
print.CELL_META         Print CELL_META
rainfallTransform       Calculate inter-distance of genomic regions
rand_color              Generate random colors
read.chromInfo          Read/parse chromInfo data from a data
                        frame/file/UCSC database
read.cytoband           Read/parse cytoband data from a data
                        frame/file/UCSC database
reverse.circlize        Convert to data coordinate system
set.current.cell        Set flag to current cell
set_track_gap           Set gaps between tracks
show.index              Label the sector index and the track index on
                        each cell
smartAlign              Adjust positions of text
uh                      Convert units
ux                      Convert unit on x direction in data coordinate
uy                      Convert unit on y direction in data coordinate
