Heatmap of p-values

Usage

pval_heatmap(
  pvals,
  order = NULL,
  cluster_columns = TRUE,
  cluster_rows = FALSE,
  show_row_names = FALSE,
  show_column_names = TRUE,
  min_colour = "red2",
  mid_colour = "lightyellow",
  max_colour = "slateblue4",
  legend_breaks = c(0, 0.5, 1),
  col = circlize::colorRamp2(legend_breaks, c(min_colour, mid_colour, max_colour)),
  heatmap_legend_param = list(color_bar = "continuous", title = "p-value", at = c(0, 0.5,
    1)),
  rect_gp = grid::gpar(col = "black"),
  column_split_vector = NULL,
  row_split_vector = NULL,
  column_split = NULL,
  row_split = NULL,
  ...
)

Arguments

pvals: A matrix of p-values.
order: Numeric vector containing row order of the heatmap.
cluster_columns: Whether columns should be sorted by hierarchical clustering.
cluster_rows: Whether rows should be sorted by hierarchical clustering.
show_row_names: Whether row names should be shown.
show_column_names: Whether column names should be shown.
min_colour: Colour used for the lowest value in the heatmap.
mid_colour: Colour used for the middle value in the heatmap.
max_colour: Colour used for the highest value in the heatmap.
legend_breaks: Numeric vector of breaks for the legend.
col: Colour function for ComplexHeatmap::Heatmap()
heatmap_legend_param: Legend function for ComplexHeatmap::Heatmap()
rect_gp: Cell border function for ComplexHeatmap::Heatmap()
column_split_vector: Vector of indices to split columns by.
row_split_vector: Vector of indices to split rows by.
column_split: Standard parameter of ComplexHeatmap::Heatmap.
row_split: Standard parameter of ComplexHeatmap::Heatmap.
...: Additional parameters passed to ComplexHeatmap::Heatmap.