distance_matrix: Create a distance matrix between nodes for spatial models

In stewid/SimInf: A Framework for Data-Driven Stochastic Disease Spread Simulations

Create a distance matrix between nodes for spatial models

Description

Calculate the euclidian distances beween coordinates for all coordinates within the cutoff.

Usage

distance_matrix(x, y, cutoff, min_dist = NULL, na_fail = TRUE)

Arguments

x	Projected x coordinate
y	Projected y coordinate
cutoff	The distance cutoff
min_dist	The minimum distance to separate two nodes. If the coordinates for two nodes are identical, the min_dist must be assigned or an error is raised. Default is NULL, i.e., to raise an error.
na_fail	A logical indicating whether missing values in x or y should raise an error or assign zero to all distances involving missing values. Default is TRUE, i.e., to raise an error.

Value

dgCMatrix

Examples

## Generate a grid 10 x 10 and place one node in each cell
## separated by 100m.
nodes <- expand.grid(x = (0:9) * 100, y = (0:9) * 100)
plot(y ~ x, nodes)

## Define the cutoff to only include neighbors within 300m.
d <- distance_matrix(x = nodes$x, y = nodes$y, cutoff = 300)

## View the first 10 rows and columns in the distance matrix
d[1:10, 1:10]

stewid/SimInf documentation built on April 21, 2024, 8:46 a.m.