This vignette contains a quick introduction.
Data
The main data format is wmppp for weighted, marked point
pattern. It inherits from the ppp class of the
spatstat package.
A wmppp object can be created from the coordinates of
points, their type and their weight.
library("dbmss")
# Draw the coordinates of 10 points
X <- runif(10)
Y <- runif(10)
# Draw the point types.
PointType <- sample(c("A", "B"), size = 10, replace = TRUE)
# Plot the point pattern. Weights are set to 1 ant the window is adjusted
autoplot(wmppp(data.frame(X, Y, PointType)))
An example dataset is provided: it is a point pattern from the
Paracou forest in French Guiana. Two species of trees are identified,
other trees are of type “Other”. Point weights are their basal area, in
square centimeters.
# Plot (second column of marks is Point Types)
autoplot(
paracou16,
labelSize = expression("Basal area (" ~cm^2~ ")"),
labelColor = "Species"
)
Main functions
The main functions of the packages are designed to calculate
distance-based measures of spatial structure. Those are non-parametric
statistics able to summarize and test the spatial distribution
(concentration, dispersion) of points.
The classical, topographic functions such as Ripley’s K are
provided by the spatstat package and supported by
dbmss for convenience.
Relative functions are available in dbmss only. These are
the \(M\) and \(m\) and \(K_d\) functions.
The bivariate \(M\) function can be
calculated for Q. Rosea trees around V. Americana
trees:
autoplot(
Mhat(
paracou16,
ReferenceType = "V. Americana",
NeighborType = "Q. Rosea"
),
main = ""
)
Confidence envelopes
Confidence envelopes of various null hypotheses can be calculated.
The univariate distribution of Q. Rosea is tested against the
null hypothesis of random location.
autoplot(
KdEnvelope(paracou16, ReferenceType = "Q. Rosea", Global = TRUE),
main = ""
)
Significant concentration is detected between about 10 and 20
meters.