RCircos-package Circos-like Plot of Genomic Data RCircos.Adjust.Scatter.Values Adjust Scatter Plot Data to Fit the Data Track RCircos.Area.Highlight Highlight PLot Area Cross One or More Tracks RCircos.Area.Plot Paint Areas on One Data Track RCircos.Chromosome.Ideogram.Plot Plot Chromosome Ideogram RCircos.Clear.Track Erase One or More Data Tracks RCircos.Clear.Zoom.Area Erase Zoom-in Plot Area RCircos.Customized.Connection.Plot Draw Connectors between Chromosome Ideogram and Gene Names RCircos.Customized.Shape.Plot Plot A Customized Shape RCircos.Data.Point Convert A Genomic Position to An Index of Circos Plot Position RCircos.Env RCircos Environment RCircos.Gene.Connector.Plot Draw Connectors between Chromosome Ideogram and Gene Names RCircos.Gene.Label.Data Sample Data for Gene Labels RCircos.Gene.Name.Plot Draw Gene Names on a Data Track RCircos.Get.Arrow.Shape Get Default Coordinates for An Arrow Shape RCircos.Get.Chromosome.Order Find the order of Chromosome Names RCircos.Get.Data.Point.Height Calculate the Height of Data in A Track RCircos.Get.Default.Circos.Units Retrieve Parameter Values Stored in RCircos Environment RCircos.Get.Gene.Label.Locations Calculate Plot Positions for Gene Labels RCircos.Get.Gene.Name.Plot.Parameters Calculate Parameters for Gene Name Plot RCircos.Get.Heatmap.Color.Scale Generate Color Scales for Heatmap Plot RCircos.Get.Heatmap.Color.Scale.Location Calculate X and Y Coordinates for Color Scale RCircos.Get.Heatmap.Data.Colors Set Colors for One Track of Heatmap RCircos.Get.Link.Colors Set up Colors for Link Lines or Ribbons RCircos.Get.Paired.Points.Positions Calcualte Plot Positions for A Genomic Interval RCircos.Get.Plot.Boundary Calculate Boundary of A Data Track RCircos.Get.Plot.Colors Assign Plot Colors for Non-Link Data Plot RCircos.Get.Plot.Layers Get the Layer Numbers for Tile Plot RCircos.Get.Plot.Parameters Methods to Retrieve RCircos Core Components Used in Current RCircos Session RCircos.Get.Polygon.Height Calculate the Height of Polygons in A Data Track RCircos.Get.Single.Point.Positions Calculate Plot Positions for Genomic Data RCircos.Get.Start.End.Locations Calculate Start and End Positions for Plot Data RCircos.Get.Track.Positions Calculate Plot Positions for A Data Track RCircos.Get.Zoom.Data Retriev Subset of Plot Data for Zoom RCircos.Get.Zoom.Range Retrieve Genomic Interval from Genomic Data for Zoom Plot RCircos.Heatmap.Data Sample Data for RCircos Heatmap Plot RCircos.Heatmap.Plot Draw Heatmap for One Data Track RCircos.Histogram.Data Sample Data for RCircos Histogram Plot RCircos.Histogram.Plot Plot Histogram for One Data Track RCircos.Initialize.Plot.Parameters Initialize RCircos Plot Parameters RCircos.Line.Data Sample Data for RCircos Line Plot RCircos.Line.Plot Draw Lines for One Data Track RCircos.Link.Data Sample Data for RCircos Link Plot RCircos.Link.Line Calculate x and y Coordinates for a Bezire Curve RCircos.Link.Plot Draw Link Lines between Two or More Genomic Positions RCircos.List.Plot.Parameters List RCircos Plot Parameters RCircos.Mouse.Expr.Data Sample Data of Mouse Gene Expression RCircos.Multiple.Species.Core.Components Setup RCircos Core Components with Multiple Species Genomes RCircos.Multiple.Species.Dataset Combine Multiple Data Sets form Different Genomes RCircos.Parallel.Line.Plot Draw Lines between Two Genomic Positions on Same Chromosome RCircos.Plot.Heatmap.Color.Scale Plot A Color Scale for Heatmap RCircos.Plot.Zoomed.Area Zoomed-in Plot of Small Genomic Region RCircos.Point.Plot Point Plot for One Data Track RCircos.Polygon.Data RCircos Polygon Demo Data RCircos.Polygon.Plot Draw Polygons on One Data Track RCircos.Pseudo.Ideogram.From.Labels Generate A Pseudo Chromosome Ideogram from List of Lables RCircos.Pseudo.Ideogram.From.Table Generate Pseudo Chromosome Ideogram from Plot Data Table RCircos.Rat.Expr.Data Sample Data of Rat Gene Expression RCircos.Reset.Plot.Ideogram Reset Methods for Modifying RCircos Core Components RCircos.Ribbon.Data Sample Data for RCircos Ribbon Plot RCircos.Ribbon.Plot Draw Ribbon between Two Genomic Regions RCircos.Scatter.Data Sample Data for RCircos Scatter Plot RCircos.Scatter.Plot Scater Plot for One Data Track RCircos.Set.Base.Plot.Positions Setup Base Plot Positions RCircos.Set.Core.Components Initialize Core Components for RCircos Plot RCircos.Set.Cytoband.Data Set Chromosome Cytoband Data for Circos Plot RCircos.Set.Plot.Area Setup Plot Area for RCircos Plot RCircos.Set.Zoom.Plot.Positions Set Position for Zoom-in Plot RCircos.Sort.Genomic.Data Sort Genomic or Ideogram Data RCircos.Tile.Data Sample Data for RCircos Tile Plot RCircos.Tile.Plot Plot Tiles for One Data Track RCircos.Track.Outline Draw Outline for A Data Track RCircos.Validate.Cyto.Info Validate Chromosome Ideogram Information RCircos.Validate.Genomic.Data Validate Genomic Data RCircos.Validate.Genomic.Info Validate Genomic Information RCircos.Validate.Plot.Parameters Validate Plot Parameters RCircos.Validate.Track.Positions Validate Track Positions RCircos.Vertical.Line.Plot Draw Vertical Lines on One Data Track RCircos.Workflow A Simple RCircos Plot Workflow RCircos.Zoom.Area.Outline Draw Outline for Zoom Plot Area RCircos.Zoom.Paired.Plot.Positions Calculate Zoomed Index of Circos Plot Positions for Genomic Intervals RCircos.Zoom.Single.Plot.Positions Calculate Zoomed Index of Circos Plot Positions for Single Point Genomic Data RCircos.ZoomIn.Chromosome Zoom in One or Partial Chromosome Ideogram RCircos.ZoomOut.Chromosome Zoom out Chromosome Ideogram RCircos.defaultBasePerUnits The Default Base Pair Number of A Circos Unit RCircos.defaultCharWidth Default Character With in Circos Unit RCircos.defaultChromPadding The Default Value of GAP in Circos (Chromosome) Unit between two Chromosome Ideogram RCircos.defaultCircosUnits Default Circos Units for RCircos RCircos.defaultTextSize Default Character Size of RCircos Plot RCircos.heatmapColors Heatmap Colors Supported by Current Version of RCircos RCircos.paddingConst Padding Distance Constant between Two Chromosomes RCircos.plotTypes Plot Types Supported by Current RCircos Version UCSC.Baylor.3.4.Rat.cytoBandIdeogram Cytoband Information for Rat Chromosome Ideogram UCSC.HG19.Human.CytoBandIdeogram Cytoband Information for Human Chromosome Ideogram UCSC.HG38.Human.CytoBandIdeogram Human Chromosome Ideogram Version 38 UCSC.Mouse.GRCm38.CytoBandIdeogram Cytoband Inforamtion for Mouse Chromosome Ideogram