Plot PCA bi plot — plotPCAbiplot • standR

Plot PCA bi plot

plotPCAbiplot(
  spe_object,
  n_loadings = 10,
  dims = c(1, 2),
  precomputed = NULL,
  assay = 1,
  arrow_x = 0,
  arrow_y = 0,
  ...
)

Arguments

spe_object: A SpatialExperiment object.
n_loadings: Plot the top n gene loadings
dims: The top n dimensions to be plotted
precomputed: a dimensional reduction results from stats::prcomp. result in reducedDims(object) to plot. Default is NULL, we will compute for you.
assay: a numeric or character, specifying the assay to use (for SummarizedExperiment and its derivative classes).
arrow_x: a numeric, indicating the x coordinate of the base of the arrow.
arrow_y: a numeric, indicating the y coordinate of the base of the arrow.
...: aesthetic mappings to pass to ggplot2::aes().

A ggplot object.

data("dkd_spe_subset")
plotPCAbiplot(dkd_spe_subset)