nnidx

Nearest-neighbour index

R

nnidx(
  x,
  y = NULL,
  win,
  kmax = 1,
  nsim = 0,
  seed = NULL,
  dist = FALSE,
  metric = "euclid"
)

The mean distance from each point to its k-th nearest neighbour, against its expectation under complete spatial randomness (CSR) in the rectangle win: the nearest-neighbour index of Clark and Evans (1954) and its k-order extension (Thompson 1956), with Donnelly’s (1978) edge-corrected expectation for the first order and, when nsim > 0, a Monte Carlo test against nsim patterns of as many uniform points in the rectangle. The Monte Carlo p-values have exact size; the z statistics ignore that nearest-neighbour distances are dependent and, uncorrected, the edge. The index tests only the k-th neighbour distances, not complete spatial randomness as a whole.

Parameters

x, y

The points in planar coordinates (project longitude and latitude with eqproj() first): x and y numeric vectors of equal length, or x a matrix or data frame with columns named x and y (an unnamed two-column matrix is read as x then y). At least two points, all inside win; no missing values.

win

The study rectangle c(xmin, xmax, ymin, ymax), in the unit of the coordinates. The intensity is the number of points over its area.

kmax

The highest neighbour order: one whole number from 1 to the number of points less 1.

nsim

The number of simulated patterns for the Monte Carlo test: one whole number from 0 (no test).

seed

NULL to draw the simulations’ seed from R’s generator (so set.seed() fixes them), or one whole number from 0.

dist

TRUE to return every point’s neighbour distances.

metric

The distance: "euclid" or "manhattan" (|dx| + |dy|, a street grid aligned with the axes), as in spwt() and jtsurf(). Under Manhattan distance the expectations use the area of the Manhattan ball, 2 r^2: the mean k-th distance is sqrt(pi / 2) times the Euclidean expectation and E R_k^2 = k / (2 lambda); no edge-corrected (Donnelly) expectation is published for it, so ce holds NaN except z, about the uncorrected expectation with Var R_1 = (4 - pi) / (8 lambda). The Monte Carlo test is unchanged.

Returns

A list. order, a data frame with one row per order k: mean (the mean k-th neighbour distance), exp (its expectation under CSR without edge effects, c_k / sqrt(lambda)), ratio, pclu and preg (the Monte Carlo p-values against clustering and against regularity, NaN without simulations) and sd (the standard deviation of one k-th distance under CSR). ce, a named vector for the first order: donnelly (the edge-corrected expectation), ratio (the index against it), z and zc (the Clark-Evans z statistics about the uncorrected and the corrected expectation). dist, NULL or a matrix with one row per point (input order) and one column per order. Distances are in the unit of the coordinates.

References

Clark, P. J. and Evans, F. C. (1954). Distance to nearest neighbor as a measure of spatial relationships in populations. Ecology, 35(4), 445-453. doi:10.2307/1931034

Thompson, H. R. (1956). Distribution of distance to nth neighbour in a population of randomly distributed individuals. Ecology, 37(2), 391-394. doi:10.2307/1933159

Donnelly, K. P. (1978). Simulations to determine the variance and edge effect of total nearest-neighbour distance. In I. Hodder (ed.), Simulation Methods in Archaeology, 91-95. Cambridge University Press.

Examples

set.seed(1)
x <- runif(200)
y <- runif(200)
nnidx(x, y, win = c(0, 1, 0, 1), kmax = 3, nsim = 99)

Generated from the R help page: nnidx in the R reference.