Heatmap of pairwise associations between features

Usage

assoc_pval_heatmap(
  correlation_matrix,
  scale_diag = "max",
  cluster_rows = TRUE,
  cluster_columns = TRUE,
  show_row_names = TRUE,
  show_column_names = TRUE,
  show_heatmap_legend = FALSE,
  confounders = NULL,
  out_of_models = NULL,
  annotation_colours = NULL,
  labels_colour = NULL,
  split_by_domain = FALSE,
  data_list = NULL,
  significance_stars = TRUE,
  slice_font_size = 8,
  ...
)

Arguments

correlation_matrix: Matrix containing all pairwise association p-values. The recommended way to obtain this matrix is through the calc_assoc_pval function.
scale_diag: Parameter that controls how the diagonals of the correlation_matrix are adjusted in the heatmap. For best viewing, this is set to "max", which will match the diagonals to whichever pairwise association has the highest p-value.
cluster_rows: Parameter for ComplexHeatmap::Heatmap. Will be ignored if split_by_domain is also provided.
cluster_columns: Parameter for ComplexHeatmap::Heatmap. Will be ignored if split_by_domain is also provided.
show_row_names: Parameter for ComplexHeatmap::Heatmap.
show_column_names: Parameter for ComplexHeatmap::Heatmap.
show_heatmap_legend: Parameter for ComplexHeatmap::Heatmap.
confounders: A named list where the elements are columns in the correlation_matrix and the names are the corresponding display names.
out_of_models: Like confounders, but a named list of out of model measures (who are also present as columns in the correlation_matrix).
annotation_colours: Named list of heatmap annotations and their colours.
labels_colour: Vector of colours to use for the columns and rows of the heatmap.
split_by_domain: The results of dl_var_summar - a dataframe that has the domain of every feature in the plotted data. columns of the correlation_matrix. Will be used to "slice" the heatmap into visually separated sections.
data_list: A nested list of input data from generate_data_list().
significance_stars: If TRUE (default), plots significance stars on heatmap cells
slice_font_size: Font size for domain separating labels.
...: Additional parameters passed into ComplexHeatmap::Heatmap.