Plot external information on a feature plot

This function is currently used to plot CNV for one dataset, on a projection from a combined Seurat object containing several datasets

Usage

plot_external(
  sobj,
  info_to_plot,
  what = NULL,
  bg_color = "gray92",
  reduction = NULL,
  dims = c(1, 2),
  pt_size = 0.5,
  analysis = "other"
)

Arguments

sobj

Seurat object

info_to_plot

DATAFRAME : a dataframe in which row names are a subset of colnames(sobj), and with one column correspond to information to plot (no default)

what

CHARACTER : a colname in info_to_plot to represent data for (default to the first numeric or factor column)

bg_color

CHARACTER : color for background cells. Color "wheat" is also a good color when plotting something using white color (default to "gray92")

reduction

CHARACTER : a reduction in names(sobj@reductions) to represent data on (default to NULL)

dims

VECTOR : a numeric vector containing the two dimensions to plot (default to c(1,2))

pt_size

NUMERIC : point size (default to 0.5)

analysis

CHARACTER : if "cnv" or "gene", plot nice color (default to "other")

Value

A ggplot object