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