Create a Plot for DimReduc Objects

Generate a ggplot plot for DimReduc objects

# S3 method for DimReduc
autoplot(
  object,
  data = missing_arg(),
  dims = c(1L, 2L),
  na.rm = TRUE,
  show.legend = NA,
  ...
)

Arguments

object

A DimReduc object

data

A data.frame (eg. from FetchData) with extra data for visualization

dims

Dimensions for visualization

na.rm

Remove values with NAs

show.legend

logical. Should this layer be included in the legends? NA, the default, includes if any aesthetics are mapped. FALSE never includes, and TRUE always includes. It can also be a named logical vector to finely select the aesthetics to display.

...

Arguments passed to geom_point

Value

A ggplot object

Details

The following aesthetics are mapped automatically:

• “x”

• “y”

• “color”

See also

ggplot2::autoplot()

Visualize Dimensional Reductions: autolayer.DimReduc(), fortify.DimReduc()

Examples

data("pbmc_small")
tsne <- pbmc_small[["tsne"]]
md <- FetchData(pbmc_small, vars = c("ident", "MS4A1"))

# Generate a plot using `autoplot()`
autoplot(tsne)

autoplot(tsne, data = md)