STDistance (version 0.6.6)

visualize_spatial_network: Visualize spatial relationships between cell types

Description

Visualize spatial relationships between cell types

Usage

visualize_spatial_network(
  spatial_data,
  sample,
  reference_type,
  target_type,
  x_col = "pxl_row_in_fullres",
  y_col = "pxl_col_in_fullres",
  type_col = "Epi_strom",
  color_palette = c(Macrophage = "#90ee90", Epithelial_cells_A = "#377EB8"),
  alpha = 0.7
)

Value

A ggplot object showing the spatial relationships

Arguments

spatial_data

Spatial coordinates data frame

sample

Sample name in the spatial transcriptome data

reference_type

Reference cell type

target_type

Target cell type

x_col

Column name for x-coordinates

y_col

Column name for y-coordinates

type_col

Column name for cell type information

color_palette

Named vector of colors for cell types

alpha

Transparency level for points and lines

Examples

visualize_spatial_network(posi, sample="SP8", reference_type="Macrophage",
                          target_type="Epithelial_cells_A",
                          x_col = "pxl_row_in_fullres",
                          y_col = "pxl_col_in_fullres",
                          type_col = "celltype_ABCDepi",
                          color_palette = c("Macrophage" = "#90ee90",
                         "Epithelial_cells_A" = "#377EB8"))