Generate dot plot from input matrix with ComplexHeatmap

Usage

.complexHeatmapDotPlot(
  colorMat,
  sizeMat,
  featureAnnDF = NULL,
  cellSplitVar = NULL,
  cellLabels = NULL,
  maxDotSize = 4,
  clusterFeature = FALSE,
  clusterCell = FALSE,
  legendColorTitle = "Matrix Value",
  legendSizeTitle = "Fraction Value",
  transpose = FALSE,
  baseSize = 8,
  cellTextSize = NULL,
  featureTextSize = NULL,
  cellTitleSize = NULL,
  featureTitleSize = NULL,
  legendTextSize = NULL,
  legendTitleSize = NULL,
  featureGrpRot = 0,
  viridisOption = "C",
  viridisDirection = -1,
  ...
)

Arguments

colorMat, sizeMat: Matrix of the same size. Values in colorMat will be visualized with color while values in sizeMat will be reflected by dot size.
featureAnnDF: Data frame of features containing feature names and grouping labels.
cellSplitVar: Split the cell orientation (default columns) by this variable.
cellLabels: Label to be shown on cell orientation.
maxDotSize: The maximum dot size. Default 4.
clusterFeature, clusterCell: Whether the feature/cell orientation (default rows/column, respectively) should be clustered. Default FALSE.
legendColorTitle, legendSizeTitle: The title for color bar and dot size legends, repectively. Default see "Matrix Value" and "Fraction Value".
transpose: Logical, whether to rotate the dot plot orientation. i.e. rows as cell aggregation and columns as features. Default FALSE.
baseSize: One-parameter control of all text sizes. Individual text element sizes can be controlled by other size arguments. "Title" sizes are 2 points larger than "text" sizes when being controlled by this. Default 8.
cellTextSize, featureTextSize, legendTextSize: Size of cell labels, feature label and legend text. Default NULL controls by baseSize.
cellTitleSize, featureTitleSize, legendTitleSize: Size of titles on cell and feature orientation and legend title. Default NULL controls by baseSize + 2.
featureGrpRot: Number of degree to rotate the feature grouping label. Default 0.
viridisOption, viridisDirection: See argument option and direction of viridis. Default "A" and -1.
...: Additional arguments passed to Heatmap.

Value

A HeatmapList object.