dplot3_heatmap: Interactive Heatmaps

In egenn/rtemis: Machine Learning and Visualization

Interactive Heatmaps

Description

Draw interactive heatmaps using heatmaply

Usage

dplot3_heatmap(
  x,
  Rowv = TRUE,
  Colv = TRUE,
  cluster = FALSE,
  symm = FALSE,
  cellnote = NULL,
  colorGrad.n = 101,
  colors = NULL,
  space = "rgb",
  lo = "#18A3AC",
  lomid = NULL,
  mid = NULL,
  midhi = NULL,
  hi = "#F48024",
  k_row = 1,
  k_col = 1,
  grid.gap = 0,
  limits = NULL,
  margins = NULL,
  main = NULL,
  xlab = NULL,
  ylab = NULL,
  key.title = NULL,
  showticklabels = NULL,
  colorbar_len = 0.7,
  plot_method = "plotly",
  theme = rtTheme,
  row_side_colors = NULL,
  row_side_palette = NULL,
  col_side_colors = NULL,
  col_side_palette = NULL,
  font.size = NULL,
  padding = 0,
  displayModeBar = TRUE,
  modeBar.file.format = "svg",
  filename = NULL,
  file.width = 500,
  file.height = 500,
  file.scale = 1,
  ...
)

Arguments

x	Input matrix
Rowv	Logical or dendrogram. If Logical: Compute dendrogram and reorder rows. Defaults to FALSE If dendrogram: use as is, without reordering See more at heatmaply::heatmaply("Rowv")
Colv	Logical or dendrogram. If Logical: Compute dendrogram and reorder columns. Defaults to FALSE If dendrogram: use as is, without reordering See more at heatmaply::heatmaply("Colv")
cluster	Logical: If TRUE, set Rowv and Colv to TRUE
symm	Logical: If TRUE, treat x symmetrically - x must be a square matrix. Default = FALSE
cellnote	Matrix with values to be displayed on hover. Defaults to ddSci(x)
colorGrad.n	Integer: Number of distinct colors to generate using colorGrad. Default = 101
colors	Character: Acts as a shortcut to defining lo, mid, etc for a number of defaults: "french", "penn", "grnblkred",
space	Character: Which colorspace to use. Option: "rgb", or "Lab". Default = "rgb". Recommendation: If mid is "white" or "black" (default), use "rgb", otherwise "Lab"
lo	Color for low end
lomid	Color for low-mid
mid	Color for middle of the range or "mean", which will result in colorOp(c(lo, hi), "mean"). If mid = NA, then only lo and hi are used to create the color gradient.
midhi	Color for middle-high
hi	Color for high end
k_row	Integer: Number of desired number of groups by which to color dendrogram branches in the rows. Default = NA (determined automatically). See heatmaply::heatmaply("k_row")
k_col	Integer: Number of desired number of groups by which to color dendrogram branches in the columns. Default = NA (determined automatically). See heatmaply::heatmaply("k_col")
grid.gap	Integer: Space between cells. Default = 0 (no space)
limits	Float, length 2: Determine color range. Default = NULL, which automatically centers values around 0
margins	Float, length 4: Heatmap margins.
main	Character: Plot title
xlab	Character: x-axis label
ylab	Character: y-axis label
key.title	Character: Title for the color key.
showticklabels	Logical: If TRUE, show tick labels.
colorbar_len	Numeric: Length of the colorbar.
plot_method	Character: Update February 2021: "ggplot" causes R session to hang on MacOS but "plotly" seems to work
theme	Character: "light", "dark"
row_side_colors	Data frame: Column names will be label names, cells should be label colors. See heatmaply::heatmaply("row_side_colors")
row_side_palette	Color palette function: See heatmaply::heatmaply("row_side_palette")
col_side_colors	Data frame: Column names will be label names, cells
col_side_palette	Color palette function: See heatmaply::heatmaply("col_side_palette")
font.size	Numeric: Font size
padding	Numeric: Padding between cells
displayModeBar	Logical: If TRUE, display the plotly mode bar
modeBar.file.format	Character: File format for image exports from the mode bar
filename	String (Optional: Path to file to save colorbar
file.width	Numeric: Width of exported image
file.height	Numeric: Height of exported image
file.scale	Numeric: Scale of exported image
...	Additional arguments to be passed to heatmaply::heatmaply

Author(s)

E.D. Gennatas

Examples

## Not run: 
x <- rnormmat(200, 20)
xcor <- cor(x)
dplot3_heatmap(xcor)

## End(Not run)

egenn/rtemis documentation built on Oct. 28, 2024, 6:30 a.m.