Getting Started
Overview
Installation
API
3D Attributes Animations and Visualization Transitions Area Graphs Aspect Ratio, Space and width Axis Bar Graphs Bin Plots Bins Boxplot Graphs Circular Graphs Citations or References Clustering Colors Combination Plots Contours Correlation Graphs DOE Data Data Customizer Data Filters Data Point Attributes Data Selection Data Table Data Table/Filter Data sorting Debug Decorations Dendrograms Density Plots Dotplot Graphs Effect Error Bars and Confidence Intervals Events Fish Graphs Foreground and Background Gantt Charts General General Attributes Genome Browser Gradients Heatmap Graphs Hierarchy Histograms Images Legends Line Graphs Lines Loess Maps Margins Meter Graphs Missing Data Motion Charts Network Algorithm Parameters Network Communities Network Graphs Network Node and Edge Attributes Oncoprint Graphs Overlays Pie Charts Plot area Quantile Regression Plots R R-Axis Random Remote Procedures Ridgeline Plots Samples Sankey Diagrams Scatter Plot Matrix Scatter Plots Shadows Shapes Tag Cloud Text Time Series Titles and Subtitles Treemap Graphs Trees UpSet Plots Variables Venn Diagrams X-Axis Y-Axis Z-Axis Zooming, Panning and Resizing cxplot false

Clustering : Parameters used in clustering

# clusterAxis

Axis to use when clustering data
Type: string
Default: samples
Options: samples, variables
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# distance

Distance metric to use when clustering data
Type: string
Default: euclidian
Options: euclidian, manhattan, max
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# imputeMethod

Imputation method for missing data when clustering
Type: string
Default: mean
Options: mean, median
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# kmeansSmpClusters

Number of clusters when clustering sample data with kmeans
Type: integer
Default: 3
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# kmeansVarClusters

Number of clusters when clustering variable data with kmeans
Type: integer
Default: 3
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# linkage

Linkage type to use when clustering data
Type: string
Default: complete
Options: single, complete, average
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# maxIterations

Number of maximum iterations when clustering data with kmeans for one dimensional graphs or maximum number of iterations when calculating force direct layout networks
Type: integer
Default: 500
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# samplesClustered

Configuration property to cluster samples
Type: boolean
Default: false
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# samplesKmeaned

Configuration property to k-mean samples
Type: boolean
Default: false
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# variablesClustered

Configuration property to cluster variables
Type: boolean
Default: false
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

# variablesKmeaned

Configuration property to k-mean variables
Type: boolean
Default: false
Used in: Area, AreaLine, Bar, Boxplot, DotLine, Dotplot, Heatmap, Line, ParallelCoordinates, Pie, Sankey, Stacked, StackedLine, StackedPercent, StackedPercentLine, TagCloud, Tree, Treemap

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