plot_heatmap: Plot similarity heatmap

In fasterius/seqCAT: High Throughput Sequencing Cell Authentication Toolkit

Description

Plot a heatmap of similarities from many-to-many SNV profile comparisons.

Usage

plot_heatmap(similarities, cluster = TRUE, annotate = TRUE,
  annotate_size = 9, legend = TRUE, legend_size = c(36, 8),
  limits = c(0, 50, 90, 100), text_size = 14, colour = "#1954A6")

Arguments

similarities	The long-format dataframe containing the data.
cluster	Cluster the samples based on similarity (boolean).
annotate	Annotate each cell with the score (boolean).
annotate_size	Text size of the annotations (numeric).
legend	Show a legend for the colour gradient (boolean).
legend_size	Height and width of the legend (vector of two integers).
limits	The limits for the colour gradient (vector of four integers).
text_size	Text size for axes, labels and legend (numeric).
colour	The main colour to use for the gradient (character).

Details

This function creates publication-ready plots of heatmaps for many-to-many sample comparisons, taking a long-format dataframe containing the summary statistics of each comparison as input.

Value

A ggplot2 graphical object.

Examples

# Load test similarities
data(test_similarities)

# Plot a similarity heatmap
heatmap <- plot_heatmap(test_similarities)

fasterius/seqCAT documentation built on Feb. 12, 2022, 7:24 p.m.