heatmap-anno: Heatmap annotation functions
In plotthis: High-Level Plotting Built Upon 'ggplot2' and Other Plotting Packages

.anno_ggseries

R Documentation

Heatmap annotation functions

Description

Heatmap annotation functions

Usage

.anno_ggseries(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  .plotting,
  ...
)

anno_pie(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  ...
)

anno_ring(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  ...
)

anno_bar(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  ...
)

anno_violin(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  ...
)

anno_boxplot(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  ...
)

anno_density(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  ...
)

anno_simple(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  alpha = 1,
  ...
)

anno_points(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  alpha = 1,
  ...
)

anno_lines(
  x,
  split_by = NULL,
  group_by,
  column,
  title,
  which = "row",
  palette,
  palcolor = NULL,
  border = TRUE,
  legend.direction,
  show_legend = TRUE,
  alpha = 1,
  add_points = TRUE,
  ...
)

Arguments

`x`	A data frame
`split_by`	A character string of the column name to split the data (heatmap)
`group_by`	A character string of the column name to group the data (rows or columns of the heatmap)
`column`	A character string of the column name of the data `x` to plot
`title`	A character string to name the legend
`which`	A character string specifying the direction of the annotation. Default is "row". Other options are "column".
`palette`	A character string specifying the palette of the annotation
`palcolor`	A character vector of colors to override the palette
`border`	A logical value indicating whether to draw the border of the annotation
`legend.direction`	A character string specifying the direction of the legend. Default is "vertical". Other options are "horizontal".
`show_legend`	A logical value indicating whether to show the legend
`.plotting`	A function to create the plot for each split and each group
`...`	Other arguments passed to `ComplexHeatmap::AnnotationFunction` The parameters passed to `row_annotation_params` and `column_annotation_params` will be passed here.
`alpha`	A numeric value between 0 and 1 specifying the transparency of the annotation
`add_points`	A logical value indicating whether to add points to the annotation