Package: circlizePlus 0.9.1

Tianze Cao

circlizePlus: Using 'ggplot2' Feature to Write Readable R Code for Circular Visualization

A wrapper for 'circlize'. All components are based on classes and objects. Users can use the addition symbol (+) to combine components for a circular visualization with 'ggplot2' style.The package is described in Zhang Z, Cao T, Huang Y and Xia Y (2025) <doi:10.3389/fgene.2025.1535368>.

Authors:Tianze Cao [aut, cre], Zheyu Zhang [aut]

circlizePlus_0.9.1.tar.gz
circlizePlus_0.9.1.zip(r-4.7-any)circlizePlus_0.9.1.zip(r-4.6-any)circlizePlus_0.9.1.zip(r-4.5-any)
circlizePlus_0.9.1.tgz(r-4.6-any)circlizePlus_0.9.1.tgz(r-4.5-any)
circlizePlus_0.9.1.tar.gz(r-4.7-any)circlizePlus_0.9.1.tar.gz(r-4.6-any)
circlizePlus_0.9.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
circlizePlus/json (API)

# Install 'circlizePlus' in R:
install.packages('circlizePlus', repos = c('https://tianzelab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tianzelab/circlizeplus/issues

Pkgdown/docs site:https://tianzelab.github.io

Datasets:

On CRAN:

Conda:

circlizecircular-visualizationggplot2

5.18 score 1 stars 102 scripts 429 downloads 39 exports 4 dependencies

Last updated from:2dd17670f4. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK125
source / vignettesOK182
linux-releaseOK131
macos-releaseOK178
macos-oldrelOK153
windows-develOK94
windows-releaseOK118
windows-oldrelOK82
wasm-releaseOK93

Exports:ccArrowccBarplotccBoxplotccCellccCellsccDendrogramccGenomicAxisccGenomicDensityccGenomicHeatmapccGenomicIdeogramccGenomicLabelsccGenomicLinesccGenomicLinkccGenomicPointsccGenomicRainfallccGenomicRectccGenomicTextccGenomicTrackccHeatmapccHeatmapLinkccLinesccLinkccParccPlotccPointsccPolygonccRasterccRectccSegmentsccTextccTrackccTrackHistccTrackLinesccTrackPointsccTrackTextccViolinccXaxisccYaxisshow

Dependencies:circlizecolorspaceGlobalOptionsshape

Dot plot categorized by chromosome, and zoomed for partial chromosome categorization
Code | Step 1 | Step 2 | Step 3 | Step 4 | Step 5 | References
Rendered fromexample1.Rmdusingknitr::rmarkdown

Last update: 2025-05-23
Started: 2025-05-22

Plot to present the VCaP cancer cell line
Code | References
Rendered fromexample2.Rmdusingknitr::rmarkdown

Last update: 2025-05-23
Started: 2025-05-22

Using the circlizePlus Package
Addition rules | S4 class ccCell and ccCells | API outline | Initializer | Parameter | Cell container | Cell geometry | Track container | Track geometry | Link | Heatmap | Data mapping from track to cell geometry | Get track from ccGenomicTrack() | Get track from ccTrack()
Rendered fromcirclizePlus.Rmdusingknitr::rmarkdown

Last update: 2025-04-16
Started: 2025-04-16

Readme and manuals

Help Manual

Help pageTopics
Addition rules in circlizePlus+,ccCell,ccCellGeom-method +,ccCells,ccCellGeom-method +,ccHeatmap,ccLink-method +,ccHeatmap,ccPar-method +,ccHeatmap,ccTrack-method +,ccPlot,ccLink-method +,ccPlot,ccPar-method +,ccPlot,ccTrack-method +,ccTrack,ccCell-method +,ccTrack,ccCells-method +,ccTrack,ccTrackGeom-method addition-rules
Draw an arrowccArrow
Draw barplotsccBarplot
Draw boxplotsccBoxplot
Generate a cell container that belongs to a particular sectorccCell
S4 class ccCellccCell-class
S4 class ccCellGeomccCellGeom-class
Generate a list of multiple object ccCell-classccCells
S4 class ccCellsccCells-class
Draw dendrogram plots in a trackccDendrogram
Add genomic axesccGenomicAxis
S4 class ccGenomicCellGeomccGenomicCellGeom-class
Create a track of density plotccGenomicDensity
Define a heatmap track for genomic graphccGenomicHeatmap
Define an ideograms track for genomic graphccGenomicIdeogram
Add labels to specific genomic trackccGenomicLabels
Add lines for genomic data visualizationccGenomicLines
Add links between two sets of genomic positionsccGenomicLink
S4 class ccGenomicLinkccGenomicLink-class
Add points for genomic data visualizationccGenomicPoints
Create a rainfall plotccGenomicRainfall
Draw rectangle for genomic data visualizationccGenomicRect
Add text for genomic data visualizationccGenomicText
Define a track for genomic data visualizationccGenomicTrack
S4 class ccGenomicTrackccGenomicTrack-class
Object generator for S4 class ccHeatmapccHeatmap
S4 class ccHeatmapccHeatmap-class
Draw a link between two matrix rows in the circular heatmapccHeatmapLink
S4 class ccHeatmapLinkccHeatmapLink-class
Draw lines in a regionccLines
Add a linkccLink
S4 class ccLinkccLink-class
Parameters for the circular layoutccPar
Object generator for S4 class ccParccPar-class
Object generator for S4 class ccPlotccPlot
S4 class ccPlotccPlot-class
Draw points in a regionccPoints
Draw polygonccPolygon
Add raster imageccRaster
Draw rectangle in a regionccRect
Draw segments connecting points in a regionccSegments
Draw text in a cellccText
Define a generic trackccTrack
S4 class ccTrackccTrack-class
S4 class ccTrackGeomccTrackGeom-class
Define a track of histogramsccTrackHist
Add lines on all sections of a single track.ccTrackLines
Add points on all sections of a single track.ccTrackPoints
Add texts on all sections of a single track.ccTrackText
Draw violin plotsccViolin
Draw x-axisccXaxis
Draw y-axisccYaxis
Data set in circlizePlusallele_frequency copy_number data-set junctions r1 r2
Draw the figures described by ccHeatmapshow,ccHeatmap-method
Draw the figures described by ccPlotshow,ccPlot-method