circlize: Circular Visualization

Circular layout is an efficient way for the visualization of huge amounts of information. Here the circlize package provides an implementation of circular layout generation in R as well as an enhancement of available software. The flexibility of this package is based on the usage of low-level graphics functions such that self-defined high-level graphics can be easily implemented by users for specific purposes. Together with the seamless connection between the powerful computational and visual environment in R, circlize gives users more convenience and freedom to design figures for better understanding complex patterns behind multi-dimensional data.

Install the latest version of this package by entering the following in R:
install.packages("circlize")
AuthorZuguang Gu
Date of publication2017-03-07 13:41:28
MaintainerZuguang Gu <z.gu@dkfz.de>
LicenseGPL (>= 2)
Version0.3.10
https://github.com/jokergoo/circlize

View on CRAN

Functions

Files

inst
inst/CITATION
inst/extdata
inst/extdata/tp_family.RData
inst/extdata/cytoBand.txt
inst/extdata/chromInfo.txt
inst/extdata/DMR.RData
inst/extdata/bird.orders.RData
inst/doc
inst/doc/circlize.Rnw
inst/doc/genomic_plot.R inst/doc/interesting_graphics.R
inst/doc/circular_phylogenetic_tree.Rnw
inst/doc/circlize.R
inst/doc/interesting_graphics.Rnw
inst/doc/visualize_relations_by_chord_diagram.pdf
inst/doc/visualize_relations_by_chord_diagram.R inst/doc/circular_phylogenetic_tree.R
inst/doc/visualize_relations_by_chord_diagram.Rnw
inst/doc/interesting_graphics.pdf
inst/doc/circular_phylogenetic_tree.pdf
inst/doc/genomic_plot.Rnw
inst/doc/circlize.pdf
inst/doc/genomic_plot.pdf
NAMESPACE
demo
demo/foo.R
demo/00Index
NEWS
R
R/overview.R R/utils.R R/plot.R R/copy_IRanges.R R/chordDiagram.R R/link.R R/genomic_utils.R R/genomic.R R/global.R R/zzz.R
vignettes
vignettes/circlize.Rnw
vignettes/figures
vignettes/figures/doodle.jpeg
vignettes/figures/genomic_initialize_ideogram-1.pdf
vignettes/circular_phylogenetic_tree.Rnw
vignettes/src
vignettes/src/intro-09-text-niceFacing.R vignettes/src/intro-11-axis.R vignettes/src/intro-21-diffradius.R vignettes/src/intro-08-lines.R vignettes/src/intro-14-hist.R vignettes/src/intro-09-text.R vignettes/src/intro-00-correspondence.R vignettes/src/intro-15-heatmap.R vignettes/src/intro-12-link.R vignettes/src/intro-18-part2.R vignettes/src/intro-05-factor.R vignettes/src/intro-02-order.R vignettes/src/intro-05-sectorwidth.R vignettes/src/intro-03-transformation.R vignettes/src/genomic-07-posTransformLinesText.R vignettes/src/intro-23-layout.R vignettes/src/intro-08-linescurve.R vignettes/src/intro-19-nested.R vignettes/src/intro-07-direction.R vignettes/src/intro-04-coordinate.R vignettes/src/intro-10-smooth.R vignettes/src/intro-22-outside.R vignettes/src/intro-20-seperated.R vignettes/src/intro-17-part.R vignettes/src/intro-06-region.R
vignettes/interesting_graphics.Rnw
vignettes/visualize_relations_by_chord_diagram.Rnw
vignettes/genomic_plot.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/circos.text.rd
man/circos.genomicDensity.rd
man/circos.genomicRainfall.rd
man/circos.trackLines.rd
man/circos.genomicPoints.rd
man/circos.trackText.rd
man/getI.rd
man/circlize-package.rd
man/circos.par.rd
man/show.index.rd
man/circlize.rd
man/circos.axis.rd
man/posTransform.text.rd
man/circos.trackPoints.rd
man/adjacencyList2Matrix.rd
man/smartAlign.rd
man/read.chromInfo.rd
man/circos.clear.rd
man/genomicDensity.rd
man/circos.genomicLink.rd
man/circos.initialize.rd
man/draw.sector.rd
man/cytoband.col.rd
man/circos.dendrogram.rd
man/circos.points.rd
man/reverse.circlize.rd
man/posTransform.default.rd
man/circos.genomicTrackPlotRegion.rd
man/colorRamp2.rd
man/circos.genomicLines.rd
man/circos.genomicRect.rd
man/circos.updatePlotRegion.rd
man/circos.info.rd
man/circos.polygon.rd
man/get.all.track.index.rd
man/read.cytoband.rd
man/circos.xaxis.rd
man/highlight.sector.rd
man/circos.genomicInitialize.rd
man/circos.rect.rd
man/circos.genomicText.rd
man/chordDiagramFromDataFrame.rd
man/degree.rd
man/highlight.chromosome.rd
man/circos.genomicTrack.rd
man/circos.initializeWithIdeogram.rd
man/circos.lines.rd
man/get.all.sector.index.rd
man/col2value.rd
man/rand_color.rd
man/rainfallTransform.rd
man/get.cell.meta.data.rd
man/get.current.chromosome.rd
man/circos.update.rd
man/circos.link.rd
man/circos.trackHist.rd
man/circos.trackPlotRegion.rd
man/circos.track.rd
man/chordDiagram.rd
man/circos.genomicPosTransformLines.rd
man/circos.segments.rd
man/circos.yaxis.rd
man/chordDiagramFromMatrix.rd
man/generateRandomBed.rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.