Plot spatial weights for cells on a spatial plot

Visualizes spatial weights by plotting cell coordinates colored by a numeric weight value. Only cells in data that match the names in weights will be included. This is useful for visualizing spatial trends such as proximity to boundaries or centroids.

Usage

plotWeights(
  data = NULL,
  weights = NULL,
  point_size = 0.2,
  theme_ggplot = theme_spneigh()
)

Arguments

data

A data frame, Seurat object or SpatialExperiment object containing spatial coordinates. Must include columns: cell, x, and y.

weights

A named numeric vector of spatial weights, with cell IDs as names.

point_size

Numeric. Point size of the cells in the plot. Default is 0.2.

theme_ggplot

A ggplot2 theme object. Default is theme_spneigh().

Value

A ggplot2 object displaying a scatter plot of cells colored by weights.

Examples

# Load coordinate data
coords <- readRDS(system.file("extdata", "MouseBrainCoords.rds",
    package = "SpNeigh"
))

# Cells in cluster 2
cells_c2 <- subset(coords, cluster == 2)[, "cell"]

# Compute centroid weights and plot
weights_cen <- computeCentroidWeights(data = coords, cell_ids = cells_c2)
plotWeights(data = coords, weights = weights_cen)


# Compute boundary weights and plot
boundary_points <- getBoundary(data = coords, one_cluster = 2)
weights_bon <- computeBoundaryWeights(
    data = coords, cell_ids = cells_c2,
    boundary = boundary_points
)
plotWeights(data = coords, weights = weights_bon)