cross_weighted_spatial_adjacency: Compute the adjacency between two adjacency matrices weighted...

In bbuchsbaum/graphweights: Constructing Adjacency Matrices Based on Spatial and Feature Similarity

Compute the adjacency between two adjacency matrices weighted by two corresponding feature matrices.

Description

Compute the adjacency between two adjacency matrices weighted by two corresponding feature matrices.

Usage

cross_weighted_spatial_adjacency(
  coord_mat1,
  coord_mat2,
  feature_mat1,
  feature_mat2,
  wsigma = 0.73,
  alpha = 0.5,
  nnk = 27,
  maxk = nnk,
  weight_mode = c("binary", "heat"),
  sigma = 1,
  dthresh = sigma * 2.5,
  normalized = TRUE
)

Arguments

coord_mat1	the first coordinate matrix (the query)
coord_mat2	the second coordinate matrix (the reference)
feature_mat1	the first feature matrix
feature_mat2	the second feature matrix
wsigma	the sigma for the feature heat kernel
alpha	the mixing weight for the spatial distance (1=all spatial weighting, 0=all feature weighting)
nnk	the maximum number of spatial nearest neighbors to include
maxk	the maximum number of neighbors to include within spatial window
dthresh	the threshold for the spatial distance
normalized	whether to normalize the rows to sum to 1

Examples

coords <- as.matrix(expand.grid(1:5, 1:5))
fmat1 <- matrix(rnorm(5*25), 25, 5)
fmat2 <- matrix(rnorm(5*25), 25, 5)

adj <- cross_weighted_spatial_adjacency(coords, coords, fmat1, fmat2)

bbuchsbaum/graphweights documentation built on April 4, 2024, 7:19 p.m.