t-SNE projection of samples coloured by group

Usage

plot_tsne(
  data,
  labs,
  title = "Evaluate the batch effect between groups",
  perplexity = 30,
  seed = 1,
  palette = "house",
  font = "Arial",
  ...
)

Arguments

data: Matrix or data frame with samples in rows and features in columns.
labs: Group labels, one per sample.
title: Plot title.
perplexity: Perplexity for the t-SNE embedding.
seed: Optional seed; t-SNE is stochastic, so a seed makes a figure reproducible.
palette: Palette name passed to get_color().
font: Font family used in the plot.
...: Passed to plot_embedding(), for example ellipse, seed, or label_centres.

Value

A ggplot object.

Examples

# \donttest{
if (requireNamespace("Rtsne", quietly = TRUE)) {
  set.seed(1)
  p <- plot_tsne(matrix(rnorm(200), nrow = 20), rep(c("A", "B"), each = 10))
}
# }