Plot Module Pseudobulk Expression

Computes per-metadata pseudobulk module expression and plots a bubble heatmap.

Usage

plot_module_pseudobulk_expression(
  module_expression_summary,
  cell_metadata,
  mtd_order,
  pseudobulk_function = mean,
  scale = TRUE,
  cap_value = 2,
  axis_text_size = 10,
  legend_text_size = 10,
  point_range = c(0.1, 1),
  continuous_colours = NULL
)

Arguments

module_expression_summary

A module-by-cell matrix/data frame, or list of module vectors.

cell_metadata

Metadata vector used to define pseudobulk groups.

mtd_order

Desired display order for metadata groups.

pseudobulk_function

Function used to aggregate expression per group.

scale

Logical indicating whether pseudobulk values are z-scored per module.

cap_value

Maximum absolute value used for color limits.

axis_text_size

Text size for axes.

legend_text_size

Text size for legends.

point_range

Range for point-size scaling.

continuous_colours

Optional color palette for expression values.

Value

A ggplot object.