add_transparency | Add transparency to colors |
adjacencyList2Matrix | Convert adjacency list to adjacency matrix |
CELL_META | Easy to way to get meta data in the current cell |
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.clear | Reset the circular layout parameters |
circos.dendrogram | Add circular dendrograms |
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... |
circos.genomicLink | Add links from two sets of genomic positions |
circos.genomicPoints | Add points to a plotting region, specifically for genomic... |
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.info | Get information of the circular plot |
circos.initialize | Initialize the circular layout |
circos.initializeWithIdeogram | Initialize the circular layout with an ideogram |
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.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.update | Create plotting regions for a whole track |
circos.updatePlotRegion | Update the plotting region in an existed cell |
circos.xaxis | Draw x-axis |
circos.yaxis | Draw y-axis |
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... |
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 |
highlight.chromosome | Highlight chromosomes |
highlight.sector | Highlight sectors and tracks |
posTransform.default | Genomic position transformation function |
posTransform.text | Genomic position transformation function specifically for... |
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... |
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 |
show.index | Label the sector index and the track index on each cell |
smartAlign | Adjust positions of text |
Subset.CELL_META | Easy to way to get meta data in the current cell |
uh | Convert units |
ux | Convert unit on x direction in data coordinate |
uy | Convert unit on y direction in data coordinate |
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