Create quaternary simplex plot with pre-calculated similarity matrix

Usage

# S3 method for simMat
plotTernary(
  x,
  title = NULL,
  veloMat = NULL,
  nGrid = 10,
  radius = 0.1,
  dotSize = NULL,
  dotShuffle = NULL,
  colorArg = NULL,
  labelColors = c("#3B4992FF", "#EE0000FF", "#008B45FF"),
  vertexLabelSize = NULL,
  vertexLabelDrift = 0.03,
  axisBreak = 5,
  axisTextShow = TRUE,
  axisTextSize = NULL,
  axisTextDrift = 0.01,
  gridLineAlpha = 0.6,
  arrowLinewidth = NULL,
  arrowAngle = 20,
  arrowLen = 0.2,
  titleSize = NULL,
  equilateral = TRUE,
  margin = 0.1,
  interactive = FALSE,
  ...
)

Arguments

x: simMat object, n cells by 4 vertices, each row summing to 1.
title: Title text of the plot. Default NULL.
veloMat: Aggregated velocity matrix. Output of aggrVeloGraph.
nGrid: Number of grids along the bottom side of the equilateral triangle. Default 10.
radius: Arrow length of unit velocity. Lower this when arrows point outside of the coordinate. Default 0.1.
dotSize: Dot aesthetics passed to geom_point. Default 0.6 when not interactive, 4 when interactive.
dotShuffle: Whether to shuffle the order of dots being added to the plot, useful when categorical colors are used and mixing of categories is expected. Default NULL does shuffle when dotColorBy given is categorical and does not otherwise.
colorArg: A "colorArg" object, internally prepared by plotQuaternary.default. Default NULL.
labelColors: Colors of the axis lines and vertex labels. Default c("#3B4992FF", "#EE0000FF", "#008B45FF") (blue, red and green)
vertexLabelSize: Size of vertex labels. Default 6 when not interactive, 16 when interactive.
vertexLabelDrift: Position adjustment of the vertex labels, only applied to non-interactive view. Default 0.03.
axisBreak: Number of breaks to be labeled along axis. Default 5.
axisTextShow: Logical, whether to show axis text. Default TRUE.
axisTextSize: Size of text along each axis break. Default 4 for non-interactive view, 12 for interactive view.
axisTextDrift: Position adjustment of the axis text, only applied to non-interactive view. Default 0.01.
gridLineAlpha: Transparency of background grid lines. Default 0.6.
arrowLinewidth: Line width of the velocity arrows. Default 0.25 for non-interactive view, 2 for interactive view.
arrowAngle: Controls the angle of the arrowhead, only applied to non-interactive view. Default 20.
arrowLen: Control length in centimetre from arrow tip to arrow tail, only applied to non-interactive view. Default 0.2.
titleSize: Size of title text. Default 14 for non-interactive view, 20 for interactive view.
equilateral: Logical, whether to always display the triangle as equilateral. Default TRUE.
margin: Margin allowed around of the triangle plotting region when equilateral = TRUE
interactive: Logical. Whether to display plotly interactive view. Default FALSE.
...: Not used