{ "_id": "6a153a26acfb0bcc41d51c60", "Package": "RCircos", "Type": "Package", "Title": "Circos 2D Track Plot", "Version": "1.2.2", "Date": "2021-12-14", "Author": "Hongen Zhang", "Maintainer": "Hongen Zhang ", "Description": "A simple and flexible way to generate Circos 2D track plot\nimages for genomic data visualization is implemented in this\npackage. The types of plots include: heatmap, histogram, lines,\nscatterplot, tiles and plot items for further decorations\ninclude connector, link (lines and ribbons), and text (gene)\nlabel. All functions require only R graphics package that comes\nwith R base installation.", "License": "GPL (>=2)", "URL": "https://github.com/hzhanghenry/RCircos", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-26 06:10:10 UTC", "User": "root" }, "Repository": "https://hzhanghenry.r-universe.dev", "Date/Publication": "2021-12-19 18:12:32 UTC", "RemoteUrl": "https://github.com/hzhanghenry/rcircos", "RemoteRef": "HEAD", "RemoteSha": "185edece54f841042e5c2feb0e04d61f21bad04b", "MD5sum": "3a0e9b253e87d3b2968f4d3a3234d1b5", "_user": "hzhanghenry", "_type": "src", "_file": "RCircos_1.2.2.tar.gz", "_fileid": "8c8e0c73b264612af50c62f0cc92ed98d36e3e64cb361674c4b402b14616f8ae", "_filesize": 2582588, "_sha256": "8c8e0c73b264612af50c62f0cc92ed98d36e3e64cb361674c4b402b14616f8ae", "_created": "2026-05-26T06:10:10.000Z", "_published": "2026-05-26T06:13:58.784Z", "_distro": "noble", "_jobs": [ { "job": 77817449119, "time": 109, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7210076752" }, { "job": 77817449105, "time": 146, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7210084683" }, { "job": 77817449091, "time": 188, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7210085415" }, { "job": 77817449139, "time": 110, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7210073854" }, { "job": 77817161372, "time": 152, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7210052942" }, { "job": 77817449055, "time": 82, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7210070991" }, { "job": 77817449120, "time": 95, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7210073991" }, { "job": 77817449143, "time": 80, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7210070497" }, { "job": 77817449087, "time": 71, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7210068348" } ], "_buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/hzhanghenry/rcircos", "_commit": { "id": "185edece54f841042e5c2feb0e04d61f21bad04b", "author": "Hongen Zhang ", "committer": "Hongen Zhang ", "message": "add inst/doc/Using_RCircos.Rnw\n", "time": 1639937552 }, "_maintainer": { "name": "Hongen Zhang", "email": "hzhang.henry@gmail.com", "login": "hzhanghenry", "description": "", "uuid": 3073071 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" } ], "_owner": "hzhanghenry", "_selfowned": true, "_usedby": 4, "_updates": [], "_tags": [], "_stars": 6, "_contributors": [ { "user": "hzhanghenry", "count": 23, "uuid": 3073071 } ], "_userbio": { "uuid": 3073071, "type": "user", "name": "hzhanghenry" }, "_downloads": { "count": 639, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/RCircos" }, "_mentions": 74, "_devurl": "https://github.com/hzhanghenry/rcircos", "_searchresults": 407, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/RCircos.html", "manual.pdf" ], "_homeurl": "https://github.com/hzhanghenry/rcircos", "_realowner": "hzhanghenry", "_cranurl": true, "_releases": [ { "version": "1.0", "date": "2013-02-17" }, { "version": "1.0.1", "date": "2013-03-01" }, { "version": "1.0.2", "date": "2013-03-08" }, { "version": "1.1.0", "date": "2013-05-17" }, { "version": "1.1.1", "date": "2013-06-03" }, { "version": "1.1.2", "date": "2013-10-30" }, { "version": "1.1.3", "date": "2015-12-14" }, { "version": "1.2.0", "date": "2016-09-28" }, { "version": "1.2.1", "date": "2019-03-12" }, { "version": "1.2.2", "date": "2021-12-19" } ], "_exports": [ "RCircos.Adjust.Scatter.Values", "RCircos.Area.Highlight", "RCircos.Area.Plot", "RCircos.Chromosome.Ideogram.Plot", "RCircos.Clear.Track", "RCircos.Clear.Zoom.Area", "RCircos.Customized.Connection.Plot", "RCircos.Customized.Shape.Plot", "RCircos.Data.Point", "RCircos.defaultBasePerUnits", "RCircos.defaultCharWidth", "RCircos.defaultChromPadding", "RCircos.defaultCircosUnits", "RCircos.defaultTextSize", "RCircos.Draw.Chromosome.Ideogram", "RCircos.Env", "RCircos.Gene.Connector.Plot", "RCircos.Gene.Name.Plot", "RCircos.Get.Arrow.Shape", "RCircos.Get.Chromosome.Order", "RCircos.Get.Data.Point.Height", "RCircos.Get.Default.Base.Per.Units", "RCircos.Get.Default.Char.Width", "RCircos.Get.Default.Chrom.Padding", "RCircos.Get.Default.Circos.Units", "RCircos.Get.Default.Text.Size", "RCircos.Get.Gene.Label.Locations", "RCircos.Get.Gene.Name.Plot.Parameters", "RCircos.Get.Heatmap.Color.Scale", "RCircos.Get.Heatmap.Color.Scale.Location", "RCircos.Get.Heatmap.Data.Colors", "RCircos.Get.Link.Colors", "RCircos.Get.Padding.Constant", "RCircos.Get.Paired.Points.Positions", "RCircos.Get.Plot.Boundary", "RCircos.Get.Plot.Colors", "RCircos.Get.Plot.Ideogram", "RCircos.Get.Plot.Layers", "RCircos.Get.Plot.Parameters", "RCircos.Get.Plot.Positions", "RCircos.Get.Polygon.Height", "RCircos.Get.Single.Point.Positions", "RCircos.Get.Start.End.Locations", "RCircos.Get.Supported.HeatmapColors", "RCircos.Get.Supported.Plot.Types", "RCircos.Get.Track.Positions", "RCircos.Get.Zoom.Data", "RCircos.Get.Zoom.Range", "RCircos.Heatmap.Plot", "RCircos.heatmapColors", "RCircos.Highligh.Chromosome.Ideogram", "RCircos.Histogram.Plot", "RCircos.Ideogram.Tick.Plot", "RCircos.Initialize.Plot.Parameters", "RCircos.Label.Chromosome.Names", "RCircos.Label.Zoom.Region", "RCircos.Line.Plot", "RCircos.Link.Line", "RCircos.Link.Plot", "RCircos.List.Plot.Parameters", "RCircos.Mark.Zoom.Area", "RCircos.Multiple.Species.Core.Components", "RCircos.Multiple.Species.Dataset", "RCircos.paddingConst", "RCircos.Parallel.Line.Plot", "RCircos.Plot.Heatmap.Color.Scale", "RCircos.Plot.Zoomed.Area", "RCircos.Plot.Zoomed.Continue.Lines", "RCircos.Plot.Zoomed.Gene.Connectors", "RCircos.Plot.Zoomed.Heatmap", "RCircos.Plot.Zoomed.Histogram", "RCircos.Plot.Zoomed.Ideogram.Ticks", "RCircos.Plot.Zoomed.Parallel.Lines", "RCircos.Plot.Zoomed.Polygons", "RCircos.Plot.Zoomed.Scatters", "RCircos.Plot.Zoomed.Tiles", "RCircos.Plot.Zoomed.Vertical.Lines", "RCircos.plotTypes", "RCircos.Point.Plot", "RCircos.Polygon.Plot", "RCircos.Pseudo.Ideogram.From.Labels", "RCircos.Pseudo.Ideogram.From.Table", "RCircos.Reset.Plot.Ideogram", "RCircos.Reset.Plot.Parameters", "RCircos.Reset.Plot.Positions", "RCircos.Ribbon.Plot", "RCircos.Scatter.Plot", "RCircos.Set.Base.Plot.Positions", "RCircos.Set.Core.Components", "RCircos.Set.Cytoband.Data", "RCircos.Set.Plot.Area", "RCircos.Set.Zoom.Plot.Positions", "RCircos.Sort.Genomic.Data", "RCircos.Tile.Plot", "RCircos.Track.Outline", "RCircos.Validate.Cyto.Info", "RCircos.Validate.Genomic.Data", "RCircos.Validate.Genomic.Info", "RCircos.Validate.Plot.Parameters", "RCircos.Validate.Track.Positions", "RCircos.Vertical.Line.Plot", "RCircos.Workflow", "RCircos.Zoom.Area.Outline", "RCircos.Zoom.Paired.Plot.Positions", "RCircos.Zoom.Single.Plot.Positions", "RCircos.ZoomIn.Chromosome", "RCircos.ZoomOut.Chromosome" ], "_datasets": [ { "name": "RCircos.Gene.Label.Data", "title": "Sample Data for Gene Labels", "object": "RCircos.Gene.Label.Data", "file": "RCircos.Gene.Label.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd", "Gene" ], "rows": 192, "table": true, "tojson": true }, { "name": "RCircos.Heatmap.Data", "title": "Sample Data for RCircos Heatmap Plot", "object": "RCircos.Heatmap.Data", "file": "RCircos.Heatmap.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd", "GeneName", "X786.O", "A498", "A549.ATCC", "ACHN", "BT.549", "CAKI.1" ], "rows": 6660, "table": true, "tojson": true }, { "name": "RCircos.Histogram.Data", "title": "Sample Data for RCircos Histogram Plot", "object": "RCircos.Histogram.Data", "file": "RCircos.Histogram.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd", "Data" ], "rows": 324, "table": true, "tojson": true }, { "name": "RCircos.Line.Data", "title": "Sample Data for RCircos Line Plot", "object": "RCircos.Line.Data", "file": "RCircos.Line.Data.RData", "class": [ "data.frame" ], "fields": [ "chromosome", "start", "stop", "num.mark", "seg.mean" ], "rows": 2037, "table": true, "tojson": true }, { "name": "RCircos.Link.Data", "title": "Sample Data for RCircos Link Plot", "object": "RCircos.Link.Data", "file": "RCircos.Link.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd", "Chromosome.1", "chromStart.1", "chromEnd.1" ], "rows": 71, "table": true, "tojson": true }, { "name": "RCircos.Mouse.Expr.Data", "title": "Sample Data of Mouse Gene Expression", "object": "RCircos.Mouse.Expr.Data", "file": "RCircos.Mouse.Expr.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "txStart", "txEnd", "Gene", "Expr.Mean" ], "rows": 16499, "table": true, "tojson": true }, { "name": "RCircos.Polygon.Data", "title": "RCircos Polygon Demo Data", "object": "RCircos.Polygon.Data", "file": "RCircos.Polygon.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd", "Data" ], "rows": 77, "table": true, "tojson": true }, { "name": "RCircos.Rat.Expr.Data", "title": "Sample Data of Rat Gene Expression", "object": "RCircos.Rat.Expr.Data", "file": "RCircos.Rat.Expr.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "txStart", "txEnd", "Gene", "Expr.Mean" ], "rows": 11426, "table": true, "tojson": true }, { "name": "RCircos.Ribbon.Data", "title": "Sample Data for RCircos Ribbon Plot", "object": "RCircos.Ribbon.Data", "file": "RCircos.Ribbon.Data.RData", "class": [ "data.frame" ], "fields": [ "chromA", "chromStartA", "chromEndA", "chromB", "chromStartB", "chromEndB" ], "rows": 4, "table": true, "tojson": true }, { "name": "RCircos.Scatter.Data", "title": "Sample Data for RCircos Scatter Plot", "object": "RCircos.Scatter.Data", "file": "RCircos.Scatter.Data.RData", "class": [ "data.frame" ], "fields": [ "chromosome", "start", "stop", "num.mark", "seg.mean" ], "rows": 1757, "table": true, "tojson": true }, { "name": "RCircos.Tile.Data", "title": "Sample Data for RCircos Tile Plot", "object": "RCircos.Tile.Data", "file": "RCircos.Tile.Data.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd" ], "rows": 152, "table": true, "tojson": true }, { "name": "UCSC.Baylor.3.4.Rat.cytoBandIdeogram", "title": "Cytoband Information for Rat Chromosome Ideogram", "object": "UCSC.Baylor.3.4.Rat.cytoBandIdeogram", "file": "UCSC.Baylor.3.4.Rat.cytoBandIdeogram.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "ChromStart", "ChromEnd", "Band", "Stain" ], "rows": 246, "table": true, "tojson": true }, { "name": "UCSC.HG19.Human.CytoBandIdeogram", "title": "Cytoband Information for Human Chromosome Ideogram", "object": "UCSC.HG19.Human.CytoBandIdeogram", "file": "UCSC.HG19.Human.CytoBandIdeogram.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "ChromStart", "ChromEnd", "Band", "Stain" ], "rows": 862, "table": true, "tojson": true }, { "name": "UCSC.HG38.Human.CytoBandIdeogram", "title": "Human Chromosome Ideogram Version 38", "object": "UCSC.HG38.Human.CytoBandIdeogram", "file": "UCSC.HG38.Human.CytoBandIdeogram.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "chromStart", "chromEnd", "Name", "Stain" ], "rows": 862, "table": true, "tojson": true }, { "name": "UCSC.Mouse.GRCm38.CytoBandIdeogram", "title": "Cytoband Inforamtion for Mouse Chromosome Ideogram", "object": "UCSC.Mouse.GRCm38.CytoBandIdeogram", "file": "UCSC.Mouse.GRCm38.CytoBandIdeogram.RData", "class": [ "data.frame" ], "fields": [ "Chromosome", "ChromStart", "ChromEnd", "Band", "Stain" ], "rows": 403, "table": true, "tojson": true } ], "_help": [ { "page": "RCircos-package", "title": "Circos-like Plot of Genomic Data", "topics": [ "RCircos-package", "RCircos" ] }, { "page": "RCircos.Adjust.Scatter.Values", "title": "Adjust Scatter Plot Data to Fit the Data Track", "topics": [ "RCircos.Adjust.Scatter.Values" ] }, { "page": "RCircos.Area.Highlight", "title": "Highlight PLot Area Cross One or More Tracks", "topics": [ "RCircos.Area.Highlight" ] }, { "page": "RCircos.Area.Plot", "title": "Paint Areas on One Data Track", "topics": [ "RCircos.Area.Plot" ] }, { "page": "RCircos.Chromosome.Ideogram.Plot", "title": "Plot Chromosome Ideogram", "topics": [ "RCircos.Chromosome.Ideogram.Plot", "RCircos.Draw.Chromosome.Ideogram", "RCircos.Highligh.Chromosome.Ideogram", "RCircos.Ideogram.Tick.Plot", "RCircos.Label.Chromosome.Names" ] }, { "page": "RCircos.Clear.Track", "title": "Erase One or More Data Tracks", "topics": [ "RCircos.Clear.Track" ] }, { "page": "RCircos.Clear.Zoom.Area", "title": "Erase Zoom-in Plot Area", "topics": [ "RCircos.Clear.Zoom.Area" ] }, { "page": "RCircos.Customized.Connection.Plot", "title": "Draw Connectors between Chromosome Ideogram and Gene Names", "topics": [ "RCircos.Customized.Connection.Plot" ] }, { "page": "RCircos.Customized.Shape.Plot", "title": "Plot A Customized Shape", "topics": [ "RCircos.Customized.Shape.Plot" ] }, { "page": "RCircos.Data.Point", "title": "Convert A Genomic Position to An Index of Circos Plot Position", "topics": [ "RCircos.Data.Point" ] }, { "page": "RCircos.defaultBasePerUnits", "title": "The Default Base Pair Number of A Circos Unit", "topics": [ "RCircos.defaultBasePerUnits" ] }, { "page": "RCircos.defaultCharWidth", "title": "Default Character With in Circos Unit", "topics": [ "RCircos.defaultCharWidth" ] }, { "page": "RCircos.defaultChromPadding", "title": "The Default Value of GAP in Circos (Chromosome) Unit between two Chromosome Ideogram", "topics": [ "RCircos.defaultChromPadding" ] }, { "page": "RCircos.defaultCircosUnits", "title": "Default Circos Units for RCircos", "topics": [ "RCircos.defaultCircosUnits" ] }, { "page": "RCircos.defaultTextSize", "title": "Default Character Size of RCircos Plot", "topics": [ "RCircos.defaultTextSize" ] }, { "page": "RCircos.Env", "title": "RCircos Environment", "topics": [ "RCircos.Env" ] }, { "page": "RCircos.Gene.Connector.Plot", "title": "Draw Connectors between Chromosome Ideogram and Gene Names", "topics": [ "RCircos.Gene.Connector.Plot" ] }, { "page": "RCircos.Gene.Label.Data", "title": "Sample Data for Gene Labels", "topics": [ "RCircos.Gene.Label.Data" ] }, { "page": "RCircos.Gene.Name.Plot", "title": "Draw Gene Names on a Data Track", "topics": [ "RCircos.Gene.Name.Plot" ] }, { "page": "RCircos.Get.Arrow.Shape", "title": "Get Default Coordinates for An Arrow Shape", "topics": [ "RCircos.Get.Arrow.Shape" ] }, { "page": "RCircos.Get.Chromosome.Order", "title": "Find the order of Chromosome Names", "topics": [ "RCircos.Get.Chromosome.Order" ] }, { "page": "RCircos.Get.Core.Components", "title": "Methods to Retrieve RCircos Core Components Used in Current RCircos Session", "topics": [ "RCircos.Get.Plot.Ideogram", "RCircos.Get.Plot.Parameters", "RCircos.Get.Plot.Positions" ] }, { "page": "RCircos.Get.Data.Point.Height", "title": "Calculate the Height of Data in A Track", "topics": [ "RCircos.Get.Data.Point.Height" ] }, { "page": "RCircos.Get.Default.Parameters", "title": "Retrieve Parameter Values Stored in RCircos Environment", "topics": [ "RCircos.Get.Default.Base.Per.Units", "RCircos.Get.Default.Char.Width", "RCircos.Get.Default.Chrom.Padding", "RCircos.Get.Default.Circos.Units", "RCircos.Get.Default.Text.Size", "RCircos.Get.Padding.Constant", "RCircos.Get.Supported.HeatmapColors", "RCircos.Get.Supported.Plot.Types" ] }, { "page": "RCircos.Get.Gene.Label.Locations", "title": "Calculate Plot Positions for Gene Labels", "topics": [ "RCircos.Get.Gene.Label.Locations" ] }, { "page": "RCircos.Get.Gene.Name.Plot.Parameters", "title": "Calculate Parameters for Gene Name Plot", "topics": [ "RCircos.Get.Gene.Name.Plot.Parameters" ] }, { "page": "RCircos.Get.Heatmap.Color.Scale", "title": "Generate Color Scales for Heatmap Plot", "topics": [ "RCircos.Get.Heatmap.Color.Scale" ] }, { "page": "RCircos.Get.Heatmap.Color.Scale.Location", "title": "Calculate X and Y Coordinates for Color Scale", "topics": [ "RCircos.Get.Heatmap.Color.Scale.Location" ] }, { "page": "RCircos.Get.Heatmap.Data.Colors", "title": "Set Colors for One Track of Heatmap", "topics": [ "RCircos.Get.Heatmap.Data.Colors" ] }, { "page": "RCircos.Get.Link.Colors", "title": "Set up Colors for Link Lines or Ribbons", "topics": [ "RCircos.Get.Link.Colors" ] }, { "page": "RCircos.Get.Paired.Points.Positions", "title": "Calcualte Plot Positions for A Genomic Interval", "topics": [ "RCircos.Get.Paired.Points.Positions" ] }, { "page": "RCircos.Get.Plot.Boundary", "title": "Calculate Boundary of A Data Track", "topics": [ "RCircos.Get.Plot.Boundary" ] }, { "page": "RCircos.Get.Plot.Colors", "title": "Assign Plot Colors for Non-Link Data Plot", "topics": [ "RCircos.Get.Plot.Colors" ] }, { "page": "RCircos.Get.Plot.Layers", "title": "Get the Layer Numbers for Tile Plot", "topics": [ "RCircos.Get.Plot.Layers" ] }, { "page": "RCircos.Get.Polygon.Height", "title": "Calculate the Height of Polygons in A Data Track", "topics": [ "RCircos.Get.Polygon.Height" ] }, { "page": "RCircos.Get.Single.Point.Positions", "title": "Calculate Plot Positions for Genomic Data", "topics": [ "RCircos.Get.Single.Point.Positions" ] }, { "page": "RCircos.Get.Start.End.Locations", "title": "Calculate Start and End Positions for Plot Data", "topics": [ "RCircos.Get.Start.End.Locations" ] }, { "page": "RCircos.Get.Track.Positions", "title": "Calculate Plot Positions for A Data Track", "topics": [ "RCircos.Get.Track.Positions" ] }, { "page": "RCircos.Get.Zoom.Data", "title": "Retriev Subset of Plot Data for Zoom", "topics": [ "RCircos.Get.Zoom.Data" ] }, { "page": "RCircos.Get.Zoom.Range", "title": "Retrieve Genomic Interval from Genomic Data for Zoom Plot", "topics": [ "RCircos.Get.Zoom.Range" ] }, { "page": "RCircos.Heatmap.Data", "title": "Sample Data for RCircos Heatmap Plot", "topics": [ "RCircos.Heatmap.Data" ] }, { "page": "RCircos.Heatmap.Plot", "title": "Draw Heatmap for One Data Track", "topics": [ "RCircos.Heatmap.Plot" ] }, { "page": "RCircos.heatmapColors", "title": "Heatmap Colors Supported by Current Version of RCircos", "topics": [ "RCircos.heatmapColors" ] }, { "page": "RCircos.Histogram.Data", "title": "Sample Data for RCircos Histogram Plot", "topics": [ "RCircos.Histogram.Data" ] }, { "page": "RCircos.Histogram.Plot", "title": "Plot Histogram for One Data Track", "topics": [ "RCircos.Histogram.Plot" ] }, { "page": "RCircos.Initialize.Plot.Parameters", "title": "Initialize RCircos Plot Parameters", "topics": [ "RCircos.Initialize.Plot.Parameters" ] }, { "page": "RCircos.Line.Data", "title": "Sample Data for RCircos Line Plot", "topics": [ "RCircos.Line.Data" ] }, { "page": "RCircos.Line.Plot", "title": "Draw Lines for One Data Track", "topics": [ "RCircos.Line.Plot" ] }, { "page": "RCircos.Link.Data", "title": "Sample Data for RCircos Link Plot", "topics": [ "RCircos.Link.Data" ] }, { "page": "RCircos.Link.Line", "title": "Calculate x and y Coordinates for a Bezire Curve", "topics": [ "RCircos.Link.Line" ] }, { "page": "RCircos.Link.Plot", "title": "Draw Link Lines between Two or More Genomic Positions", "topics": [ "RCircos.Link.Plot" ] }, { "page": "RCircos.List.Plot.Parameters", "title": "List RCircos Plot Parameters", "topics": [ "RCircos.List.Plot.Parameters" ] }, { "page": "RCircos.Mouse.Expr.Data", "title": "Sample Data of Mouse Gene Expression", "topics": [ "RCircos.Mouse.Expr.Data" ] }, { "page": "RCircos.Multiple.Species.Core.Components", "title": "Setup RCircos Core Components with Multiple Species Genomes", "topics": [ "RCircos.Multiple.Species.Core.Components" ] }, { "page": "RCircos.Multiple.Species.Dataset", "title": "Combine Multiple Data Sets form Different Genomes", "topics": [ "RCircos.Multiple.Species.Dataset" ] }, { "page": "RCircos.paddingConst", "title": "Padding Distance Constant between Two Chromosomes", "topics": [ "RCircos.paddingConst" ] }, { "page": "RCircos.Parallel.Line.Plot", "title": "Draw Lines between Two Genomic Positions on Same Chromosome", "topics": [ "RCircos.Parallel.Line.Plot" ] }, { "page": "RCircos.Plot.Heatmap.Color.Scale", "title": "Plot A Color Scale for Heatmap", "topics": [ "RCircos.Plot.Heatmap.Color.Scale" ] }, { "page": "RCircos.plotTypes", "title": "Plot Types Supported by Current RCircos Version", "topics": [ "RCircos.plotTypes" ] }, { "page": "RCircos.Point.Plot", "title": "Point Plot for One Data Track", "topics": [ "RCircos.Point.Plot" ] }, { "page": "RCircos.Polygon.Data", "title": "RCircos Polygon Demo Data", "topics": [ "RCircos.Polygon.Data" ] }, { "page": "RCircos.Polygon.Plot", "title": "Draw Polygons on One Data Track", "topics": [ "RCircos.Polygon.Plot" ] }, { "page": "RCircos.Pseudo.Ideogram.From.Labels", "title": "Generate A Pseudo Chromosome Ideogram from List of Lables", "topics": [ "RCircos.Pseudo.Ideogram.From.Labels" ] }, { "page": "RCircos.Pseudo.Ideogram.From.Table", "title": "Generate Pseudo Chromosome Ideogram from Plot Data Table", "topics": [ "RCircos.Pseudo.Ideogram.From.Table" ] }, { "page": "RCircos.Rat.Expr.Data", "title": "Sample Data of Rat Gene Expression", "topics": [ "RCircos.Rat.Expr.Data" ] }, { "page": "RCircos.Reset.Core.Components", "title": "Reset Methods for Modifying RCircos Core Components", "topics": [ "RCircos.Reset.Plot.Ideogram", "RCircos.Reset.Plot.Parameters", "RCircos.Reset.Plot.Positions" ] }, { "page": "RCircos.Ribbon.Data", "title": "Sample Data for RCircos Ribbon Plot", "topics": [ "RCircos.Ribbon.Data" ] }, { "page": "RCircos.Ribbon.Plot", "title": "Draw Ribbon between Two Genomic Regions", "topics": [ "RCircos.Ribbon.Plot" ] }, { "page": "RCircos.Scatter.Data", "title": "Sample Data for RCircos Scatter Plot", "topics": [ "RCircos.Scatter.Data" ] }, { "page": "RCircos.Scatter.Plot", "title": "Scater Plot for One Data Track", "topics": [ "RCircos.Scatter.Plot" ] }, { "page": "RCircos.Set.Base.Plot.Positions", "title": "Setup Base Plot Positions", "topics": [ "RCircos.Set.Base.Plot.Positions" ] }, { "page": "RCircos.Set.Core.Components", "title": "Initialize Core Components for RCircos Plot", "topics": [ "RCircos.Set.Core.Components" ] }, { "page": "RCircos.Set.Cytoband.Data", "title": "Set Chromosome Cytoband Data for Circos Plot", "topics": [ "RCircos.Set.Cytoband.Data" ] }, { "page": "RCircos.Set.Plot.Area", "title": "Setup Plot Area for RCircos Plot", "topics": [ "RCircos.Set.Plot.Area" ] }, { "page": "RCircos.Set.Zoom.Plot.Positions", "title": "Set Position for Zoom-in Plot", "topics": [ "RCircos.Set.Zoom.Plot.Positions" ] }, { "page": "RCircos.Sort.Genomic.Data", "title": "Sort Genomic or Ideogram Data", "topics": [ "RCircos.Sort.Genomic.Data" ] }, { "page": "RCircos.Tile.Data", "title": "Sample Data for RCircos Tile Plot", "topics": [ "RCircos.Tile.Data" ] }, { "page": "RCircos.Tile.Plot", "title": "Plot Tiles for One Data Track", "topics": [ "RCircos.Tile.Plot" ] }, { "page": "RCircos.Track.Outline", "title": "Draw Outline for A Data Track", "topics": [ "RCircos.Track.Outline" ] }, { "page": "RCircos.Validate.Cyto.Info", "title": "Validate Chromosome Ideogram Information", "topics": [ "RCircos.Validate.Cyto.Info" ] }, { "page": "RCircos.Validate.Genomic.Data", "title": "Validate Genomic Data", "topics": [ "RCircos.Validate.Genomic.Data" ] }, { "page": "RCircos.Validate.Genomic.Info", "title": "Validate Genomic Information", "topics": [ "RCircos.Validate.Genomic.Info" ] }, { "page": "RCircos.Validate.Plot.Parameters", "title": "Validate Plot Parameters", "topics": [ "RCircos.Validate.Plot.Parameters" ] }, { "page": "RCircos.Validate.Track.Positions", "title": "Validate Track Positions", "topics": [ "RCircos.Validate.Track.Positions" ] }, { "page": "RCircos.Vertical.Line.Plot", "title": "Draw Vertical Lines on One Data Track", "topics": [ "RCircos.Vertical.Line.Plot" ] }, { "page": "RCircos.Workflow", "title": "A Simple RCircos Plot Workflow", "topics": [ "RCircos.Workflow" ] }, { "page": "RCircos.Zoom.Area.Outline", "title": "Draw Outline for Zoom Plot Area", "topics": [ "RCircos.Zoom.Area.Outline" ] }, { "page": "RCircos.Zoom.Paired.Plot.Positions", "title": "Calculate Zoomed Index of Circos Plot Positions for Genomic Intervals", "topics": [ "RCircos.Zoom.Paired.Plot.Positions" ] }, { "page": "RCircos.Zoom.Single.Plot.Positions", "title": "Calculate Zoomed Index of Circos Plot Positions for Single Point Genomic Data", "topics": [ "RCircos.Zoom.Single.Plot.Positions" ] }, { "page": "RCircos.ZoomIn.Chromosome", "title": "Zoom in One or Partial Chromosome Ideogram", "topics": [ "RCircos.ZoomIn.Chromosome" ] }, { "page": "RCircos.ZoomIn.Plot", "title": "Zoomed-in Plot of Small Genomic Region", "topics": [ "RCircos.Label.Zoom.Region", "RCircos.Mark.Zoom.Area", "RCircos.Plot.Zoomed.Area", "RCircos.Plot.Zoomed.Continue.Lines", "RCircos.Plot.Zoomed.Gene.Connectors", "RCircos.Plot.Zoomed.Heatmap", "RCircos.Plot.Zoomed.Histogram", "RCircos.Plot.Zoomed.Ideogram.Ticks", "RCircos.Plot.Zoomed.Parallel.Lines", "RCircos.Plot.Zoomed.Polygons", "RCircos.Plot.Zoomed.Scatters", "RCircos.Plot.Zoomed.Tiles", "RCircos.Plot.Zoomed.Vertical.Lines" ] }, { "page": "RCircos.ZoomOut.Chromosome", "title": "Zoom out Chromosome Ideogram", "topics": [ "RCircos.ZoomOut.Chromosome" ] }, { "page": "UCSC.Baylor.3.4.Rat.cytoBandIdeogram", "title": "Cytoband Information for Rat Chromosome Ideogram", "topics": [ "UCSC.Baylor.3.4.Rat.cytoBandIdeogram" ] }, { "page": "UCSC.HG19.Human.CytoBandIdeogram", "title": "Cytoband Information for Human Chromosome Ideogram", "topics": [ "UCSC.HG19.Human.CytoBandIdeogram" ] }, { "page": "UCSC.HG38.Human.CytoBandIdeogram", "title": "Human Chromosome Ideogram Version 38", "topics": [ "UCSC.HG38.Human.CytoBandIdeogram" ] }, { "page": "UCSC.Mouse.GRCm38.CytoBandIdeogram", "title": "Cytoband Inforamtion for Mouse Chromosome Ideogram", "topics": [ "UCSC.Mouse.GRCm38.CytoBandIdeogram" ] } ], "_rundeps": [], "_vignettes": [ { "source": "Using_RCircos.Rnw", "filename": "Using_RCircos.pdf", "title": "Using_RCircos", "engine": "utils::Sweave", "headings": [], "created": "2021-12-14 16:33:42", "modified": "2021-12-19 18:08:06", "commits": 2 } ], "_score": 7.466926905656488, "_indexed": true, "_nocasepkg": "rcircos", "_universes": [ "hzhanghenry" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.2.2", "date": "2026-05-26T06:11:57.000Z", "distro": "noble", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "51b1e2a2146ace5724c927a6acc8ec66e78ff616a0173f03dec3b55bf20954cb", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.6.0", "os": "linux", "version": "1.2.2", "date": "2026-05-26T06:12:36.000Z", "distro": "noble", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "b3a7c65f6d51482a21a15ec5dbfa840a98d175d31d2d083a9e9fdd2010ac16a4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.5.3", "os": "mac", "version": "1.2.2", "date": "2026-05-26T06:12:43.000Z", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "f75aaa155bd730d39a8e69d7e284cc6a7605a24ac95e19cce6acfe05aa87b8cb", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.6.0", "os": "mac", "version": "1.2.2", "date": "2026-05-26T06:11:55.000Z", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "8176e7394341b0a489f87626e52f9993c2ce49eef06d5024ee3ef1c2c68a6146", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.6.0", "os": "wasm", "version": "1.2.2", "date": "2026-05-26T06:11:53.000Z", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "e1a00918f92cd05d5d1815549a5facf9a293e6e440698b61d69f8c1e80576d4f", "status": "success", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.7.0", "os": "win", "version": "1.2.2", "date": "2026-05-26T06:11:38.000Z", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "0039981390e76688f86ed91d838723282f8a8e184fafa0be1db6c77302a2c028", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.5.3", "os": "win", "version": "1.2.2", "date": "2026-05-26T06:11:25.000Z", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "5a781ad6c1a24e091b68918026402b782ff0cc542617cd5511d6ca7d3d653960", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" }, { "r": "4.6.0", "os": "win", "version": "1.2.2", "date": "2026-05-26T06:11:14.000Z", "commit": "185edece54f841042e5c2feb0e04d61f21bad04b", "fileid": "845d7a2bd1230a7fc4e2888d6b1f6bc66808fedd22d31d8b02e8bf9c98f7e995", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/hzhanghenry/actions/runs/26435450012" } ] }