Kdhat: Estimation of the Kd function

Description Usage Arguments Details Value Note Author(s) References See Also Examples

View source: R/Kdhat.R

Description

Estimates the Kd function

Usage

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 Kdhat(X, r = NULL, ReferenceType, NeighborType = ReferenceType, Weighted = FALSE,
       Original = TRUE, Approximate = ifelse(X$n < 10000, 0, 1), Adjust = 1,
       MaxRange = "ThirdW", StartFromMinR = FALSE, CheckArguments = TRUE)

Arguments

X

A weighted, marked planar point pattern (wmppp.object) or a Dtable object.

r

A vector of distances. If NULL, a default value is set: 512 equally spaced values are used, from the smallest distance between points to half the diameter of the window.

ReferenceType

One of the point types. If "", all points are considered (this is not the default value; NeighborType is ignored then) to estimate the average value of simulated Kd values under the null hypothesis of RandomLocation (Marcon and Puech, 2012).

NeighborType

One of the point types. By default, the same as reference type.

Weighted

Logical; if TRUE, estimates the Kemp function.

Original

Logical; if TRUE (by default), the original bandwidth selection by Duranton and Overman (2005) following Silverman (1986: eq 3.31) is used. If FALSE, it is calculated following Sheather and Jones (1991), i.e. the state of the art. See bw.SJ for more details.

Approximate

if not 0 (1 is a good choice), exact distances between pairs of points are rounded to 1024 times Approximate single values equally spaced between 0 and the largest distance. This technique (Scholl and Brenner, 2015) allows saving a lot of memory when addressing large point sets (the default value is 1 over 10000 points). Increasing Approximate allows better precision at the cost of proportional memory use. Ignored if X is a Dtable object.

Adjust

Force the automatically selected bandwidth (following Original) to be multiplied by Adjust. Setting it to values lower than one (1/2 for example) will sharpen the estimation.

MaxRange

The maximum value of r to consider, ignored if r is not NULL. Default is "ThirdW", one third of the diameter of the window. Other choices are "HalfW", and "QuarterW" and "D02005". "HalfW", and "QuarterW" are for half or the quarter of the diameter of the window. "D02005" is for the median distance observed between points, following Duranton and Overman (2005). "ThirdW" should be close to "DO2005" but has the advantage to be independent of the point types chosen as ReferenceType and NeighborType, to simplify comparisons between different types. "D02005" is approximated by "ThirdW" if Approximate is not 0. if X is a Dtable object, the diameter of the window is taken as the max distance between points.

StartFromMinR

Logical; if TRUE, points are assumed to be further from each other than the minimum observed distance, So Kd will not be estimated below it: it is assumed to be 0. If FALSE, distances are smoothed down to $r=0$. Ignored if Approximate is not 0: then, estimation always starts from $r=0$.

CheckArguments

Logical; if TRUE, the function arguments are verified. Should be set to FALSE to save time in simulations for example, when the arguments have been checked elsewhere.

Details

Kd is a density, absolute measure of a point pattern structure. Kd is computed efficiently by building a matrix of distances between point pairs and calculating the density of their distribution (the default values of r are those of the density function). The kernel estimator is Gaussian.

The weighted Kd function has been named Kemp (emp is for employees) by Duranton and Overman (2005).

If X is not a Dtable object, the maximum value of r is obtained from the geometry of the window rather than caculating the median distance between points as suggested by Duranton and Overman (2005) to save (a lot of) calculation time.

Value

An object of class fv, see fv.object, which can be plotted directly using plot.fv.

Note

Estimating Kd relies on calculating distances, exactly or approximately (if Approximate is not 0). Then distances are smoothed by estimating their probability density. Reflection is used to estimate density close to the lowest distance, that is the minimum observed distance (if StartFromMinR is TRUE) or 0: all distances below 4 times the estimation kernel bandwith apart from the lowest distance are duplicated (symmetrically with respect to the lowest distance) to avoid edge effects (underestimation of the density close to the lowest distance).

Author(s)

Eric Marcon <[email protected]>

References

Duranton, G. and Overman, H. G. (2005). Testing for Localisation Using Micro-Geographic Data. Review of Economic Studies 72(4): 1077-1106.

Marcon, E. and F. Puech (2017). A typology of distance-based measures of spatial concentration. Regional Science and Urban Economics. 62:56-67.

Scholl, T. and Brenner, T. (2015) Optimizing distance-based methods for large data sets, Journal of Geographical Systems 17(4): 333-351.

Sheather, S. J. and Jones, M. C. (1991) A reliable data-based bandwidth selection method for kernel density estimation. Journal of the Royal Statistical Society series B, 53, 683-690.

Silverman, B. W. (1986). Density estimation for statistics and data analysis. Chapman and Hall, London.

See Also

KdEnvelope, Mhat

Examples

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data(paracou16)
plot(paracou16)

# Calculate Kd
(Paracou <- Kdhat(paracou16, , "Q. Rosea", "V. Americana"))
# Plot
plot(Paracou)

Example output

Loading required package: spatstat
Loading required package: nlme
Loading required package: rpart

spatstat 1.52-1       (nickname: 'Apophenia') 
For an introduction to spatstat, type 'beginner' 


Note: spatstat version 1.52-1 is out of date by more than 7 months; we recommend upgrading to the latest version.
Loading required package: Rcpp
Warning message:
Interpretation of arguments maxsize and markscale has changed (in spatstat version 1.37-0 and later). Size of a circle is now measured by its diameter. 
Function value object (class 'fv')
for the function r -> Kd(r)
.................................
   Math.label Description        
r  r          distance argument r
Kd hat(Kd)(r) Estimated Kd(r)    
.................................
Default plot formula:  .~r
where "." stands for 'Kd'
Recommended range of argument r: [0, 102.11]
Available range of argument r: [0, 102.11]
Unit of length: 1 meter

dbmss documentation built on March 19, 2018, 5:05 p.m.