plot_puck_wrapper: Plots a continuous value over filtered locations on the puck

In dmcable/RCTD: SpatialeXpressionR: Cell type identification and cell type-specific differential expression in spatial transcriptomics

Plots a continuous value over filtered locations on the puck

Description

Colors points based on value of the function, filtered for e.g. UMI and cell type

Usage

plot_puck_wrapper(
  puck,
  plot_val,
  cell_type = NULL,
  minUMI = 0,
  maxUMI = 2e+05,
  min_val = NULL,
  max_val = NULL,
  title = NULL,
  my_cond = NULL
)

Arguments

puck	an object of type SpatialRNA
plot_val	a named (by barcode) list of values to plot
cell_type	string specifying cell type to plot. if NULL, then all cell types are plotted
minUMI	numeric, minimum value for total UMIs to filter pixels
maxUMI	numeric, maximum value for total UMIs to filter pixels
min_val	numeric, minimum value for the range of plot as a numeric list
max_val	numeric, maximum value for the range of plot as a numeric list
cell_type_info	cell type information and profiles (see get_cell_type_info)

Value

Returns a ggplot object

dmcable/RCTD documentation built on Feb. 24, 2024, 11:03 p.m.