Plot confusion matrix between two label columns — plot_label_confusion

Computes a confusion matrix for two label columns in `colData(spe)` and visualises it with counts overlaid.

Usage

plot_label_confusion_matrix(
  spe,
  label_col1,
  label_col2,
  drop_na = TRUE,
  title = "Label confusion matrix",
  subtitle = NULL,
  fill_low = "#f0f9e8",
  fill_high = "#08589e",
  plot_marginals = FALSE
)

Arguments

spe: A `SpatialExperiment`/`SingleCellExperiment`.
label_col1: First label column name.
label_col2: Second label column name.
drop_na: Logical; drop rows with NA in either label. Default TRUE.
title: Plot title.
subtitle: Optional subtitle; defaults to "label_col1 vs label_col2".
fill_low: Low-end color for the fill gradient. Default "#f0f9e8".
fill_high: High-end color for the fill gradient. Default "#08589e".
plot_marginals: Logical; if TRUE, plot marginal totals on the edges (right side and top) of the confusion matrix. Default FALSE.

Value

A `ggplot` object.

Examples

data("cytoGateR_example", package = "cytoGateR")
spe <- cytoGateR_example
plot_label_confusion_matrix(spe, "cell_type", "knn_label")