Plot t-SNE embeddings — plot

Plot t-SNE embeddings computed by compute_tsne(). Supports both 2D (ggplot2) and 3D (plotly) views.

Usage

plot_tsne(
  tsne_res,
  view = c("2d", "3d"),
  colour = NULL,
  size = 1.5,
  alpha = 0.8,
  palette = NULL,
  ...
)

Arguments

tsne_res: A phip_tsne object returned by compute_tsne(). The function also works with a plain tibble/data frame that contains at least columns tSNE1 and tSNE2 (and tSNE3 for 3D).
view: Character, either "2d" or "3d". "2d" returns a ggplot object; "3d" returns a plotly HTML widget.
colour: Optional name of a column in tsne_res to map to point colour. If NULL, the function uses the first metadata column stored in attr(tsne_res, "meta_cols"), if available.
size: Numeric point size for scatter plots. Defaults to 1.5.
alpha: Numeric transparency for points (0-1). Defaults to 0.8.
palette: Optional vector of colour values passed to scale_color_manual() (2D) or colors (3D plotly).
...: Currently ignored; reserved for future extensions.

Value

For view = "2d", a ggplot object. For view = "3d", a plotly object (htmlwidget).

Examples

if (FALSE) { # \dontrun{
tsne_res <- compute_tsne(ps, compute_distance(ps))

# 2D plot
p2d <- plot_tsne(tsne_res, view = "2d", colour = "type_person")

# 3D interactive plot
p3d <- plot_tsne(tsne_res, view = "3d", colour = "type_person")
} # }