spatstat v1.38-1

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by Adrian Baddeley

Spatial Point Pattern analysis, model-fitting, simulation, tests

A package for analysing spatial data, mainly Spatial Point Patterns, including multitype/marked points and spatial covariates, in any two-dimensional spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, and point patterns on a linear network. Contains about 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference. Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks. Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Diggle-Cressie-Loosmore-Ford, Dao-Genton) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov) are also supported. Parametric models can be fitted to point pattern data using the functions ppm, kppm, slrm similar to glm. Types of models include Poisson, Gibbs, Cox and cluster point processes. Models may involve dependence on covariates, interpoint interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise, AIC). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.

Functions in spatstat

Name Description
BadGey Hybrid Geyer Point Process Model
Finhom Inhomogeneous Empty Space Function
Extract.influence.ppm Extract Subset of Influence Object
Frame Extract or Change the Containing Rectangle of a Spatial Object
Emark Diagnostics for random marking
DiggleGratton Diggle-Gratton model
Extract.hyperframe Extract or Replace Subset of Hyperframe
Extract.lpp Extract Subset of Point Pattern on Linear Network
Extract.msr Extract Subset of Signed or Vector Measure
AreaInter The Area Interaction Point Process Model
Extract.psp Extract Subset of Line Segment Pattern
Fest Estimate the empty space function F
Extract.ppx Extract Subset of Multidimensional Point Pattern
Jmulti Marked J Function
Extract.ppp Extract or Replace Subset of Point Pattern
G3est Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern
Extract.tess Extract or Replace Subset of Tessellation
Extract.im Extract Subset of Image
Gcross Multitype Nearest Neighbour Distance Function (i-to-j)
Fiksel The Fiksel Interaction
Gest Nearest Neighbour Distance Function G
Kdot.inhom Inhomogeneous Multitype K Dot Function
Linhom L-function
alltypes Calculate Summary Statistic for All Types in a Multitype Point Pattern
Extract.splitppp Extract or Replace Sub-Patterns
Kres Residual K Function
Smooth.ppp Spatial smoothing of observations at irregular points
Extract.quad Subset of Quadrature Scheme
Kcross Multitype K Function (Cross-type)
Jcross Multitype J Function (i-to-j)
Kmodel.kppm K Function or Pair Correlation Function of Cluster Model or Cox model
Gdot Multitype Nearest Neighbour Distance Function (i-to-any)
DiggleGatesStibbard Diggle-Gates-Stibbard Point Process Model
as.data.frame.hyperframe Coerce Hyperframe to Data Frame
Ldot.inhom Inhomogeneous Multitype L Dot Function
anemones Beadlet Anemones Data
MultiStrauss The Multitype Strauss Point Process Model
Kmodel K Function or Pair Correlation Function of a Point Process Model
StraussHard The Strauss / Hard Core Point Process Model
as.interact Extract Interaction Structure
Gmulti Marked Nearest Neighbour Distance Function
Window Extract or Change the Window of a Spatial Object
Jdot Multitype J Function (i-to-any)
Kcross.inhom Inhomogeneous Cross K Function
Ginhom Inhomogeneous Nearest Neighbour Function
LennardJones The Lennard-Jones Potential
bdist.points Distance to Boundary of Window
adaptive.density Intensity Estimate of Point Pattern Using Tessellation
LambertW Lambert's W Function
Jest Estimate the J-function
Poisson Poisson Point Process Model
beginner Print Introduction For Beginners
as.mask.psp Convert Line Segment Pattern to Binary Pixel Mask
Extract.owin Extract Subset of Window
Geyer Geyer's Saturation Point Process Model
ants Harkness-Isham ants' nests data
Gcom Model Compensator of Nearest Neighbour Function
Pairwise Generic Pairwise Interaction model
Smooth.msr Smooth a Signed or Vector-Valued Measure
Gres Residual G Function
Kcom Model Compensator of K Function
affine.tess Apply Geometrical Transformation To Tessellation
Concom The Connected Component Process Model
Triplets The Triplet Point Process Model
Extract.layered Extract Subset of a Layered Object
as.lpp Convert Data to a Point Pattern on a Linear Network
as.data.frame.im Convert Pixel Image to Data Frame
area.owin Area of a Window
allstats Calculate four standard summary functions of a point pattern.
Ksector Sector K-function
as.hyperframe.ppx Extract coordinates and marks of multidimensional point pattern
Hardcore The Hard Core Point Process Model
Smoothfun.ppp Smooth Interpolation of Marks as a Spatial Function
WindowOnly Extract Window of Spatial Object
clickjoin Interactively join vertices on a plot
Kmeasure Reduced Second Moment Measure
anova.lppm ANOVA for Fitted Point Process Models on Linear Network
MultiStraussHard The Multitype/Hard Core Strauss Point Process Model
anova.ppm ANOVA for Fitted Point Process Models
clickppp Interactively Add Points
SatPiece Piecewise Constant Saturated Pairwise Interaction Point Process Model
bind.fv Combine Function Value Tables
Kest K-function
Kdot Multitype K Function (i-to-any)
cbind.hyperframe Combine Hyperframes by Rows or by Columns
Ldot Multitype L-function (i-to-any)
affine.ppp Apply Affine Transformation To Point Pattern
Kmulti Marked K-Function
Extract.linnet Extract Subset of Linear Network
Gfox Foxall's Distance Functions
diameter.box3 Geometrical Calculations for Three-Dimensional Box
Kmodel.ppm K Function or Pair Correlation Function of Gibbs Point Process model
MultiHard The Multitype Hard Core Point Process Model
Kmulti.inhom Inhomogeneous Marked K-Function
Kest.fft K-function using FFT
Lcross.inhom Inhomogeneous Cross Type L Function
Lest L-function
Ord Generic Ord Interaction model
PairPiece The Piecewise Constant Pairwise Interaction Point Process Model
as.owin Convert Data To Class owin
Replace.im Reset Values in Subset of Image
Saturated Saturated Pairwise Interaction model
affine Apply Affine Transformation
boxx Multi-Dimensional Box
as.rectangle Window Frame
bw.frac Bandwidth Selection Based on Window Geometry
amacrine Hughes' Amacrine Cell Data
bronzefilter Bronze gradient filter data
Hest Spherical Contact Distribution Function
as.hyperframe Convert Data to Hyperframe
Extract.listof Extract or Replace Subset of a List of Things
box3 Three-Dimensional Box
K3est K-function of a Three-Dimensional Point Pattern
Extract.fv Extract or Replace Subset of Function Values
Iest Estimate the I-function
bei Tropical rain forest trees
as.mask Pixel Image Approximation of a Window
affine.owin Apply Affine Transformation To Window
by.ppp Apply a Function to a Point Pattern Broken Down by Factor
F3est Empty Space Function of a Three-Dimensional Point Pattern
crossdist.ppx Pairwise Distances Between Two Different Multi-Dimensional Point Patterns
Hybrid Hybrid Interaction Point Process Model
affine.linnet Apply Geometrical Transformations to a Linear Network
Tstat Third order summary statistic
as.tess Convert Data To Tessellation
affine.psp Apply Affine Transformation To Line Segment Pattern
bdist.pixels Distance to Boundary of Window
colourmap Colour Lookup Tables
disc Circular Window
blur Apply Gaussian Blur to a Pixel Image
boundingbox Bounding Box of a Window, Image, or Point Pattern
diameter.owin Diameter of a Window
corners Corners of a rectangle
beachcolours Create Colour Scheme for a Range of Numbers
as.data.frame.psp Coerce Line Segment Pattern to a Data Frame
as.box3 Convert Data to Three-Dimensional Box
cdf.test Spatial Distribution Test for Point Pattern or Point Process Model
dilation Morphological Dilation
crossdist.ppp Pairwise distances between two different point patterns
chorley Chorley-Ribble Cancer Data
bw.relrisk Cross Validated Bandwidth Selection for Relative Risk Estimation
compatible.fasp Test Whether Function Arrays Are Compatible
coef.slrm Coefficients of Fitted Spatial Logistic Regression Model
coef.mppm Coefficients of Point Process Model Fitted to Multiple Point Patterns
affine.lpp Apply Geometrical Transformations to Point Pattern on a Linear Network
crossdist Pairwise distances
closepairs Close Pairs of Points
as.fv Convert Data To Class fv
contour.listof Plot a List of Things
berman.test Berman's Tests for Point Process Model
bw.diggle Cross Validated Bandwidth Selection for Kernel Density
as.data.frame.ppp Coerce Point Pattern to a Data Frame
bramblecanes Hutchings' Bramble Canes data
areaGain Difference of Disc Areas
colourtools Convert and Compare Colours in Different Formats
centroid.owin Centroid of a window
bw.smoothppp Cross Validated Bandwidth Selection for Spatial Smoothing
crossdist.psp Pairwise distances between two different line segment patterns
distfun Distance Map as a Function
add.texture Fill Plot With Texture
duplicated.ppp Determine Duplicated Points in a Spatial Point Pattern
chicago Chicago Street Crime Data
as.ppp Convert Data To Class ppp
Smooth Spatial smoothing of data
connected Connected components
border Border Region of a Window
compareFit Residual Diagnostics for Multiple Fitted Models
as.matrix.owin Convert Pixel Image to Matrix
dirichlet Dirichlet Tessellation of Point Pattern
clmfires Castilla-La Mancha Forest Fires
cells Biological Cells Point Pattern
concatxy Concatenate x,y Coordinate Vectors
erosion Morphological Erosion
Softcore The Soft Core Point Process Model
cauchy.estpcf Fit the Neyman-Scott cluster process with Cauchy kernel
compatible Test Whether Objects Are Compatible
Kscaled Locally Scaled K-function
as.layered Convert Data To Layered Object
convexhull.xy Convex Hull of Points
bw.ppl Likelihood Cross Validation Bandwidth Selection for Kernel Density
effectfun Compute Fitted Effect of a Spatial Covariate in a Point Process Model
exactMPLEstrauss Exact Maximum Pseudolikelihood Estimate for Stationary Strauss Process
coef.ppm Coefficients of Fitted Point Process Model
complement.owin Take Complement of a Window
im.object Class of Images
contour.im Contour plot of pixel image
clip.infline Intersect Infinite Straight Lines with a Window
delaunay.distance Distance on Delaunay Triangulation
improve.kppm Improve Intensity Estimate of Fitted Cluster Point Process Model
gauss.hermite Gauss-Hermite Quadrature Approximation to Expectation for Normal Distribution
edge.Ripley Ripley's Isotropic Edge Correction
formula.fv Extract or Change the Plot Formula for a Function Value Table
is.owin Test Whether An Object Is A Window
collapse.fv Collapse Several Function Tables into One
dclf.test Diggle-Cressie-Loosmore-Ford and Maximum Absolute Deviation Tests
distmap.psp Distance Map of Line Segment Pattern
angles.psp Orientation Angles of Line Segments
edges2triangles List Triangles in a Graph
as.function.fv Convert Function Value Table to Function
as.matrix.im Convert Pixel Image to Matrix or Array
connected.ppp Connected components of a point pattern
cut.ppp Classify Points in a Point Pattern
as.ppm Extract Fitted Point Process Model
commonGrid Determine A Common Spatial Domain And Pixel Resolution
bdist.tiles Distance to Boundary of Window
as.psp Convert Data To Class psp
applynbd Apply Function to Every Neighbourhood in a Point Pattern
chop.tess Subdivide a Window or Tessellation using a Set of Lines
closing Morphological Closing
Jinhom Inhomogeneous J-function
eroded.areas Areas of Morphological Erosions
domain Extract the Domain of any Spatial Object
dfbetas.ppm Parameter influence measure
crossdist.default Pairwise distances between two different sets of points
Smooth.fv Apply Smoothing to Function Values
anova.slrm Analysis of Deviance for Spatial Logistic Regression Models
compatible.fv Test Whether Function Objects Are Compatible
flu Influenza Virus Proteins
compatible.im Test Whether Pixel Images Are Compatible
default.dummy Generate a Default Pattern of Dummy Points
Strauss The Strauss Point Process Model
intensity.lpp Empirical Intensity of Point Pattern on Linear Network
Kinhom Inhomogeneous K-function
crossdist.pp3 Pairwise distances between two different three-dimensional point patterns
harmonise.im Make Pixel Images Compatible
addvar Added Variable Plot for Point Process Model
is.rectangle Determine Type of Window
dilated.areas Areas of Morphological Dilations
eem Exponential Energy Marks
imcov Spatial Covariance of a Pixel Image
gorillas Gorilla Nesting Sites
append.psp Combine Two Line Segment Patterns
cauchy.estK Fit the Neyman-Scott cluster process with Cauchy kernel
is.ppp Test Whether An Object Is A Point Pattern
incircle Find Largest Circle Inside Window
longleaf Longleaf Pines Point Pattern
is.dppm Recognise Fitted Determinantal Point Process Models
dclf.progress Progress Plot of Test of Spatial Pattern
envelope.envelope Recompute Envelopes
eval.fv Evaluate Expression Involving Functions
data.ppm Extract Original Data from a Fitted Point Process Model
ellipse Elliptical Window.
circumradius Circumradius and Diameter of a Linear Network
OrdThresh Ord's Interaction model
ippm Fit Point Process Model Involving Irregular Trend Parameters
integral.im Integral of a Pixel Image
is.lpp Test Whether An Object Is A Point Pattern on a Linear Network
clarkevans.test Clark and Evans Test
is.marked.ppm Test Whether A Point Process Model is Marked
infline Infinite Straight Lines
foo Foo is Not a Variable
formula.ppm Model Formulae for Gibbs Point Process Models
interp.im Interpolate a Pixel Image
fitin.ppm Extract the Interaction from a Fitted Point Process Model
clickbox Interactively Define a Rectangle
iplot Point and Click Interface for Displaying Spatial Data
density.splitppp Kernel Smoothed Intensity of Split Point Pattern
localK Neighbourhood density function
dmixpois Mixed Poisson Distribution
convolve.im Convolution of Pixel Images
fv.object Function Value Table
lansing Lansing Woods Point Pattern
linearKcross Multitype K Function (Cross-type) for Linear Point Pattern
integral.msr Integral of a Measure
model.images Compute Images of Constructed Covariates
identify.psp Identify Segments in a Line Segment Pattern
dummify Convert Data to Numeric Values by Constructing Dummy Variables
matchingdist Distance for a Point Pattern Matching
linearmarkequal Mark Connection Function for Multitype Point Pattern on Linear Network
crossdist.lpp Pairwise distances between two point patterns on a linear network
diagnose.ppm Diagnostic Plots for Fitted Point Process Model
bw.stoyan Stoyan's Rule of Thumb for Bandwidth Selection
bounding.box.xy Convex Hull of Points
demopat Artificial Data Point Pattern
distmap Distance Map
distmap.ppp Distance Map of Point Pattern
is.multitype.ppm Test Whether A Point Process Model is Multitype
cut.im Convert Pixel Image from Numeric to Factor
default.expand Default Expansion Rule for Simulation of Model
markcorrint Mark Correlation Integral
deltametric Delta Metric
clarkevans Clark and Evans Aggregation Index
fryplot Fry Plot of Point Pattern
methods.linnet Methods for Linear Networks
msr Signed or Vector-Valued Measure
is.hybrid Test Whether Object is a Hybrid
betacells Beta Ganglion Cells in Cat Retina
fitted.slrm Fitted Probabilities for Spatial Logistic Regression
owin Create a Window
nndensity.ppp Estimate Intensity of Point Pattern Using Nearest Neighbour Distances
pairdist.default Pairwise distances
density.ppp Kernel Smoothed Intensity of Point Pattern
fasp.object Function Arrays for Spatial Patterns
markstat Summarise Marks in Every Neighbourhood in a Point Pattern
methods.boxx Methods for Multi-Dimensional Box
linearpcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
distmap.owin Distance Map of Window
methods.pp3 Methods for three-dimensional point patterns
intensity Intensity of a Dataset or a Model
plot.linim Plot Pixel Image on Linear Network
as.polygonal Convert a Window to a Polygonal Window
lineardisc Compute Disc of Given Radius in Linear Network
methods.linfun Methods for Functions on Linear Network
distfun.lpp Distance Map on Linear Network
is.marked Test Whether Marks Are Present
expand.owin Apply Expansion Rule
cdf.test.mppm Spatial Distribution Test for Multiple Point Process Model
by.im Apply Function to Image Broken Down by Factor
is.convex Test Whether a Window is Convex
diameter.boxx Geometrical Calculations for Multi-Dimensional Box
as.linim Convert to Pixel Image on Linear Network
linearKinhom Inhomogeneous Linear K Function
linearK Linear K Function
nndist.ppx Nearest Neighbour Distances in Any Dimensions
influence.ppm Influence Measure for Spatial Point Process Model
edge.Trans Translation Edge Correction
linim Create Pixel Image on Linear Network
flipxy Exchange X and Y Coordinates
discpartarea Area of Part of Disc
closepairs.pp3 Close Pairs of Points in 3 Dimensions
demohyper Demonstration Example of Hyperframe of Spatial Data
im.apply Apply Function Pixelwise to List of Images
lpp Create Point Pattern on Linear Network
marks.psp Marks of a Line Segment Pattern
distcdf Distribution Function of Interpoint Distance
funxy Spatial Function Class
anova.mppm ANOVA for Fitted Multiple Point Process Models
methods.fii Methods for Fitted Interactions
discretise Safely Convert Point Pattern Window to Binary Mask
crossing.psp Crossing Points of Two Line Segment Patterns
envelope.lpp Envelope for Point Patterns on Linear Network
kaplan.meier Kaplan-Meier Estimator using Histogram Data
deriv.fv Calculate Derivative of Function Values
ord.family Ord Interaction Process Family
areaLoss Difference of Disc Areas
eval.linim Evaluate Expression Involving Pixel Images on Linear Network
fitted.ppm Fitted Conditional Intensity for Point Process Model
eval.fasp Evaluate Expression Involving Function Arrays
logLik.mppm Log Likelihood for Poisson Point Process Model
diameter Diameter of an Object
copper Berman-Huntington points and lines data
localKinhom Inhomogeneous Neighbourhood Density Function
nncross Nearest Neighbours Between Two Patterns
layerplotargs Extract or Replace the Plot Arguments of a Layered Object
model.matrix.ppm Extract Design Matrix from Point Process Model
linearpcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
logLik.ppm Log Likelihood and AIC for Point Process Model
heather Diggle's Heather Data
methods.units Methods for Units
intersect.owin Intersection, Union or Set Subtraction of Two Windows
is.empty Test Whether An Object Is Empty
inside.owin Test Whether Points Are Inside A Window
pool.envelope Pool Data from Several Envelopes
inforder.family Infinite Order Interaction Family
multiplicity.ppp Count Multiplicity of Duplicate Points
fv Create a Function Value Table
idw Inverse-distance weighted smoothing of observations at irregular points
intersect.tess Intersection of Two Tessellations
methods.lpp Methods for Point Patterns on a Linear Network
linearpcfcross Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
objsurf Objective Function Surface
matclust.estpcf Fit the Matern Cluster Point Process by Minimum Contrast Using Pair Correlation
density.psp Kernel Smoothing of Line Segment Pattern
miplot Morisita Index Plot
pcf.fv Pair Correlation Function obtained from K Function
fitted.mppm Fitted Conditional Intensity for Multiple Point Process Model
lurking Lurking variable plot
finpines Pine saplings in Finland.
methods.kppm Methods for Cluster Point Process Models
pcfdot Multitype pair correlation function (i-to-any)
gordon People in Gordon Square
plot.im Plot a Pixel Image
hybrid.family Hybrid Interaction Family
opening Morphological Opening
pairdist Pairwise distances
nnmap K-th Nearest Point Map
midpoints.psp Midpoints of Line Segment Pattern
edges2vees List Dihedral Triples in a Graph
mppm Fit Point Process Model to Several Point Patterns
linfun Function on a Linear Network
is.subset.owin Determine Whether One Window is Contained In Another
ganglia Beta Ganglion Cells in Cat Retina, Old Version
harmonic Basis for Harmonic Functions
harmonise.fv Make Function Tables Compatible
plot.lppm Plot a Fitted Point Process Model on a Linear Network
hist.im Histogram of Pixel Values in an Image
is.multitype.ppp Test Whether A Point Pattern is Multitype
nndist.pp3 Nearest neighbour distances in three dimensions
moribund Outdated Functions
envelope Simulation Envelopes of Summary Function
dummy.ppm Extract Dummy Points Used to Fit a Point Process Model
nnwhich.ppx Nearest Neighbours in Any Dimensions
nbfires Point Patterns of New Brunswick Forest Fires
intensity.quadratcount Intensity Estimates Using Quadrat Counts
is.multitype Test whether Object is Multitype
pixellate Convert Spatial Object to Pixel Image
markcorr Mark Correlation Function
fvnames Abbreviations for Groups of Columns in Function Value Table
endpoints.psp Endpoints of Line Segment Pattern
plot.envelope Plot a Simulation Envelope
ppp Create a Point Pattern
grow.rectangle Add margins to rectangle
im Create a Pixel Image Object
plot.mppm plot a Fitted Multiple Point Process Model
is.marked.ppp Test Whether A Point Pattern is Marked
nncorr Nearest-Neighbour Correlation Indices of Marked Point Pattern
paracou Kimboto trees at Paracou, French Guiana
plot.slrm Plot a Fitted Spatial Logistic Regression
lohboot Bootstrap Confidence Bands for Summary Function
pool.fasp Pool Data from Several Function Arrays
methods.box3 Methods for Three-Dimensional Box
plot.ppm plot a Fitted Point Process Model
plot.ppp plot a Spatial Point Pattern
plot.splitppp Plot a List of Point Patterns
kppm Fit Cluster or Cox Point Process Model
periodify Make Periodic Copies of a Spatial Pattern
quadratcount Quadrat counting for a point pattern
humberside Humberside Data on Childhood Leukaemia and Lymphoma
overlap.owin Compute Area of Overlap
lgcp.estpcf Fit a Log-Gaussian Cox Point Process by Minimum Contrast
quadrats Divide Region into Quadrats
invoke.symbolmap Plot Data Using Graphics Symbol Map
rMosaicSet Mosaic Random Set
ewcdf Weighted Empirical Cumulative Distribution Function
nnmark Mark of Nearest Neighbour
nncross.lpp Nearest Neighbours on a Linear Network
nsegments Number of Line Segments in a Line Segment Pattern
ppx Multidimensional Space-Time Point Pattern
nndist.lpp Nearest neighbour distances on a linear network
is.im Test Whether An Object Is A Pixel Image
marks Marks of a Point Pattern
padimage Pad the Border of a Pixel Image
latest.news Print News About Latest Version of Package
hyytiala Scots pines and other trees at Hyytiala
nndist Nearest neighbour distances
npoints Number of Points in a Point Pattern
is.ppm Test Whether An Object Is A Fitted Point Process Model
edges Extract Boundary Edges of a Window.
quad.object Class of Quadrature Schemes
pcf.ppp Pair Correlation Function of Point Pattern
japanesepines Japanese Pines Point Pattern
linearKdot.inhom Inhomogeneous multitype K Function (Dot-type) for Linear Point Pattern
quadscheme.logi Generate a Logistic Regression Quadrature Scheme from a Point Pattern
layered Create List of Plotting Layers
hamster Aherne's hamster tumour data
istat Point and Click Interface for Exploratory Analysis of Point Pattern
clusterset Allard-Fraley Estimator of Cluster Feature
pairsat.family Saturated Pairwise Interaction Point Process Family
marktable Tabulate Marks in Neighbourhood of Every Point in a Point Pattern
is.stationary Recognise Stationary and Poisson Point Process Models
hextess Hexagonal Grid or Tessellation
pairdist.ppp Pairwise distances
markvario Mark Variogram
linearpcf Linear Pair Correlation Function
mincontrast Method of Minimum Contrast
plot.fv Plot Function Values
pixelcentres Extract Pixel Centres as Point Pattern
pairdist.pp3 Pairwise distances in Three Dimensions
pixellate.psp Convert Line Segment Pattern to Pixel Image
nnwhich Nearest neighbour
plot.pp3 Plot a three-dimensional point pattern
plot.quadrattest Display the result of a quadrat counting test.
pcfinhom Inhomogeneous Pair Correlation Function
quadrat.test Dispersion Test for Spatial Point Pattern Based on Quadrat Counts
plot.linnet Plot a linear network
localpcf Local pair correlation function
plot.kppm Plot a fitted cluster point process
rDGS Perfect Simulation of the Diggle-Gates-Stibbard Process
pairs.im Scatterplot Matrix for Pixel Images
quadrat.test.splitppp Dispersion Test of CSR for Split Point Pattern Based on Quadrat Counts
methods.objsurf Methods for Objective Function Surfaces
rVarGamma Simulate Neyman-Scott Point Process with Variance Gamma cluster kernel
pairwise.family Pairwise Interaction Process Family
print.quad Print a Quadrature Scheme
leverage.ppm Leverage Measure for Spatial Point Process Model
methods.ppx Methods for Multidimensional Space-Time Point Patterns
perimeter Perimeter Length of Window
pcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Type-i-To-Any-Type)
levelset Level Set of a Pixel Image
plot.tess Plot a tessellation
nztrees New Zealand Trees Point Pattern
model.depends Identify Covariates Involved in each Model Term
predict.ppm Prediction from a Fitted Point Process Model
mean.im Maximum, Minimum, Mean, Median, Range or Sum of Pixel Values in an Image
project.ppm Force Point Process Model to be Valid
ponderosa Ponderosa Pine Tree Point Pattern
matclust.estK Fit the Matern Cluster Point Process by Minimum Contrast
pcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-Type)
linearKdot Multitype K Function (Dot-type) for Linear Point Pattern
pcf Pair Correlation Function
npfun Dummy Function Returns Number of Points
default.rmhcontrol Set Default Control Parameters for Metropolis-Hastings Algorithm.
lgcp.estK Fit a Log-Gaussian Cox Point Process by Minimum Contrast
progressreport Print Progress Reports
km.rs Kaplan-Meier and Reduced Sample Estimator using Histograms
plot.quad Plot a Spatial Quadrature Scheme
quadscheme Generate a Quadrature Scheme from a Point Pattern
pppmatching.object Class of Point Matchings
linnet Create a Linear Network
predict.lppm Predict Point Process Model on Linear Network
linearmarkconnect Mark Connection Function for Multitype Point Pattern on Linear Network
maxnndist Compute Minimum or Maximum Nearest-Neighbour Distance
project2segment Move Point To Nearest Line
pool Pool Data
rGaussPoisson Simulate Gauss-Poisson Process
hyperframe Hyper Data Frame
pcfcross Multitype pair correlation function (cross-type)
nncross.pp3 Nearest Neighbours Between Two Patterns in 3D
plot.layered Layered Plot
quadrat.test.mppm Chi-Squared Test for Multiple Point Process Model Based on Quadrat Counts
quantile.im Sample Quantiles of Pixel Image
quasirandom Quasirandom Patterns
linearpcfdot Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
rMaternII Simulate Matern Model II
interp.colourmap Interpolate smoothly between specified colours
pool.rat Pool Data from Several Ratio Objects
rMatClust Simulate Matern Cluster Process
predict.kppm Prediction from a Fitted Cluster Point Process Model
logLik.slrm Loglikelihood of Spatial Logistic Regression
psstG Pseudoscore Diagnostic For Fitted Model against Saturation Alternative
nearest.raster.point Find Pixel Nearest to a Given Point
psst Pseudoscore Diagnostic For Fitted Model against General Alternative
predict.slrm Predicted or Fitted Values from Spatial Logistic Regression
panel.contour Panel Plots using Colour Image or Contour Lines
letterR Window in Shape of Letter R
mucosa Cells in Gastric Mucosa
plot.scan.test Plot Result of Scan Test
rPoissonCluster Simulate Poisson Cluster Process
persp.im Perspective Plot of Pixel Image
gridcentres Rectangular grid of points
qqplot.ppm Q-Q Plot of Residuals from Fitted Point Process Model
print.ppp Print Brief Details of a Point Pattern Dataset
linearKcross.inhom Inhomogeneous multitype K Function (Cross-type) for Linear Point Pattern
linearpcfinhom Inhomogeneous Linear Pair Correlation Function
intensity.ppm Intensity of Fitted Point Process Model
methods.slrm Methods for Spatial Logistic Regression Models
rStrauss Perfect Simulation of the Strauss Process
plot.texturemap Plot a Texture Map
pairdist.lpp Pairwise shortest-path distances between points on a linear network
psp.object Class of Line Segment Patterns
methods.funxy Methods for Spatial Functions
markconnect Mark Connection Function
rCauchy Simulate Neyman-Scott Point Process with Cauchy cluster kernel
predict.mppm Prediction for Fitted Multiple Point Process Model
nnwhich.pp3 Nearest neighbours in three dimensions
methods.rhohat Methods for Intensity Functions of Spatial Covariate
pyramidal Pyramidal Neurons in Cingulate Cortex
nearestsegment Find Line Segment Nearest to Each Point
quadratresample Resample a Point Pattern by Resampling Quadrats
nndist.psp Nearest neighbour distances between line segments
plot.influence.ppm Plot Influence Measure
rNeymanScott Simulate Neyman-Scott Process
psp Create a Line Segment Pattern
plot.symbolmap Plot a Graphics Symbol Map
rHardcore Perfect Simulation of the Hardcore Process
pixellate.ppp Convert Point Pattern to Pixel Image
intensity.ppp Empirical Intensity of Point Pattern
gridweights Compute Quadrature Weights Based on Grid Counts
nnwhich.lpp Identify Nearest Neighbours on a Linear Network
model.frame.ppm Extract the Variables in a Point Process Model
pppmatching Create a Point Matching
owin.object Class owin
methods.lppm Methods for Fitted Point Process Models on a Linear Network
methods.rho2hat Methods for Intensity Functions of Two Spatial Covariates
plot.psp plot a Spatial Line Segment Pattern
quad.ppm Extract Quadrature Scheme Used to Fit a Point Process Model
lut Lookup Tables
parres Partial Residuals for Point Process Model
plot.listof Plot a List of Things
pcfmulti Marked pair correlation function
plot.bermantest Plot Result of Berman Test
print.owin Print Brief Details of a Spatial Window
rQuasi Generate Quasirandom Point Pattern in Given Window
pairdist.ppx Pairwise Distances in Any Dimensions
murchison Murchison gold deposits
ppp.object Class of Point Patterns
plot.msr Plot a Signed or Vector-Valued Measure
plot.owin Plot a Spatial Window
plot.quadratcount Plot Quadrat Counts
pairdist.psp Pairwise distances between line segments
rDiggleGratton Perfect Simulation of the Diggle-Gratton Process
methods.layered Methods for Layered Objects
print.ppm Print a Fitted Point Process Model
pcf3est Pair Correlation Function of a Three-Dimensional Point Pattern
pointsOnLines Place Points Evenly Along Specified Lines
profilepl Profile Maximum Pseudolikelihood
osteo Osteocyte Lacunae Data: Replicated Three-Dimensional Point Patterns
pcf.fasp Pair Correlation Function obtained from array of K functions
pixelquad Quadrature Scheme Based on Pixel Grid
pppdist Distance Between Two Point Patterns
plot.lpp Plot Point Pattern on Linear Network
psstA Pseudoscore Diagnostic For Fitted Model against Area-Interaction Alternative
pp3 Three Dimensional Point Pattern
print.im Print Brief Details of an Image
print.psp Print Brief Details of a Line Segment Pattern Dataset
rLGCP Simulate Log-Gaussian Cox Process
plot.plotppm Plot a plotppm Object Created by plot.ppm
pixellate.owin Convert Window to Pixel Image
quantile.ewcdf Quantiles of Weighted Empirical Cumulative Distribution Function
nnfun.lpp Nearest Neighbour Map on Linear Network
plot.cdftest Plot a Spatial Distribution Test
ppm.ppp Fit Point Process Model to Point Pattern Data
rMosaicField Mosaic Random Field
plot.fasp Plot a Function Array
rMaternI Simulate Matern Model I
rStraussHard Perfect Simulation of the Strauss-Hardcore Process
plot.hyperframe Plot Entries in a Hyperframe
plot.colourmap Plot a Colour Map
plot.leverage.ppm Plot Leverage Function
ppm Fit Point Process Model to Data
pairorient Point Pair Orientation Distribution
ppm.object Class of Fitted Point Process Models
Extract.fasp Extract Subset of Function Array
Lcross Multitype L-function (cross-type)
affine.im Apply Affine Transformation To Pixel Image
as.im Convert to Pixel Image
Extract.leverage.ppm Extract Subset of Leverage Object
bw.scott Scott's Rule for Bandwidth Selection for Kernel Density
clickpoly Interactively Define a Polygon
convexhull Convex Hull
coords Extract or Change Coordinates of a Spatial or Spatiotemporal Point Pattern
delaunay Delaunay Triangulation of Point Pattern
dirichlet.weights Compute Quadrature Weights Based on Dirichlet Tessellation
envelope.pp3 Simulation Envelopes of Summary Function for 3D Point Pattern
eval.im Evaluate Expression Involving Pixel Images
identify.ppp Identify Points in a Point Pattern
lppm Fit Point Process Model to Point Pattern on Linear Network
layout.boxes Generate a Row or Column Arrangement of Rectangles.
model.matrix.slrm Extract Design Matrix from Spatial Logistic Regression Model
nnclean Nearest Neighbour Clutter Removal
lengths.psp Lengths of Line Segments
nnfun Nearest Neighbour Index Map as a Function
pool.quadrattest Pool Several Quadrat Tests
rhohat Smoothing Estimate of Covariate Transformation
rpoisppx Generate Poisson Point Pattern in Any Dimensions
rpoislinetess Poisson Line Tessellation
reload.or.compute Compute Unless Previously Saved
rcell Simulate Baddeley-Silverman Cell Process
run.simplepanel Run Point-and-Click Interface
sharpen Data Sharpening of Point Pattern
rho2hat Smoothed Relative Density of Pairs of Covariate Values
relrisk Nonparametric Estimate of Spatially-Varying Relative Risk
rmhmodel.default Build Point Process Model for Metropolis-Hastings Simulation.
scalardilate Apply Scalar Dilation
split.im Divide Image Into Sub-images
tile.areas Compute Areas of Tiles in a Tessellation
superimpose Superimpose Several Geometric Patterns
scan.test Spatial Scan Test
vertices Vertices of a Window
rmhexpand Specify Simulation Window or Expansion Rule
runifpoint Generate N Uniform Random Points
rThomas Simulate Thomas Process
rmhstart Determine Initial State for Metropolis-Hastings Simulation.
spatialcdf Spatial Cumulative Distribution Function
redwood California Redwoods Point Pattern (Ripley's Subset)
rotate.im Rotate a Pixel Image
rpoisppOnLines Generate Poisson Point Pattern on Line Segments
texturemap Texture Map
sidelengths.owin Side Lengths of Enclosing Rectangle of a Window
reflect Reflect In Origin
rotate.owin Rotate a Window
rescale.im Convert Pixel Image to Another Unit of Length
with.fv Evaluate an Expression in a Function Table
runifpointx Generate N Uniform Random Points in Any Dimensions
rcellnumber Generate Random Numbers of Points for Cell Process
residuals.mppm Residuals for Point Process Model Fitted to Multiple Point Patterns
rescue.rectangle Convert Window Back To Rectangle
rthin Random Thinning
rstrat Simulate Stratified Random Point Pattern
rlabel Random Re-Labelling of Point Pattern
tilenames Names of Tiles in a Tessellation
rmpoint Generate N Random Multitype Points
tess Create a Tessellation
residuals.ppm Residuals for Fitted Point Process Model
rotate Rotate
spokes Spokes pattern of dummy points
runifpoint3 Generate N Uniform Random Points in Three Dimensions
rmhmodel.list Define Point Process Model for Metropolis-Hastings Simulation.
selfcrossing.psp Crossing Points in a Line Segment Pattern
setcov Set Covariance of a Window
subfits Extract List of Individual Point Process Models
summary.ppm Summarizing a Fitted Point Process Model
suffstat Sufficient Statistic of Point Process Model
valid.ppm Check Whether Point Process Model is Valid
summary.ppp Summary of a Point Pattern Dataset
rmpoispp Generate Multitype Poisson Point Pattern
runifdisc Generate N Uniform Random Points in a Disc
stratrand Stratified random point pattern
shift.ppp Apply Vector Translation To Point Pattern
simplenet Simple Example of Linear Network
square Square Window
swedishpines Swedish Pines Point Pattern
will.expand Test Expansion Rule
unique.ppp Extract Unique Points from a Spatial Point Pattern
spatstat-package The Spatstat Package
simplify.owin Approximate a Polygon by a Simpler Polygon
sumouter Compute Quadratic Forms
raster.x Cartesian Coordinates for a Pixel Raster
range.fv Range of Function Values
update.ppm Update a Fitted Point Process Model
varblock Estimate Variance of Summary Statistic by Subdivision
vargamma.estpcf Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
summary.psp Summary of a Line Segment Pattern Dataset
rsyst Simulate systematic random point pattern
unmark Remove Marks
summary.owin Summary of a Spatial Window
reach Interaction Distance of a Point Process
with.hyperframe Evaluate an Expression in Each Row of a Hyperframe
rescale.ppp Convert Point Pattern to Another Unit of Length
reduced.sample Reduced Sample Estimator using Histogram Data
rescale.psp Convert Line Segment Pattern to Another Unit of Length
redwoodfull California Redwoods Point Pattern (Entire Dataset)
rknn Theoretical Distribution of Nearest Neighbour Distance
rescale.owin Convert Window to Another Unit of Length
rmh.ppm Simulate from a Fitted Point Process Model
timed Record the Computation Time
rescale Convert dataset to another unit of length
shift.psp Apply Vector Translation To Line Segment Pattern
rpoint Generate N Random Points
rotate.psp Rotate a Line Segment Pattern
ripras Estimate window from points alone
rmhmodel.ppm Interpret Fitted Model for Metropolis-Hastings Simulation.
superimpose.lpp Superimpose Several Point Patterns on Linear Network
stieltjes Compute Integral of Function Against Cumulative Distribution
spatstat.options Internal Options in Spatstat Package
rmh Simulate point patterns using the Metropolis-Hastings algorithm.
spatstat-deprecated Deprecated spatstat functions
whist Weighted Histogram
rshift.psp Randomly Shift a Line Segment Pattern
round.ppp Apply Numerical Rounding to Spatial Coordinates
summary.im Summarizing a Pixel Image
symbolmap Graphics Symbol Map
rpoispp3 Generate Poisson Point Pattern in Three Dimensions
waka Trees in Waka national park
summary.quad Summarizing a Quadrature Scheme
runiflpp Uniform Random Points on a Linear Network
simulate.ppm Simulate a Fitted Gibbs Point Process Model
shift Apply Vector Translation
rpoislpp Poisson Point Process on a Linear Network
spatstat-internal Internal spatstat functions
vcov.kppm Variance-Covariance Matrix for a Fitted Cluster Point Process Model
simba Simulated data from a two-group experiment with replication within each group.
rmhcontrol Set Control Parameters for Metropolis-Hastings Algorithm.
rmh.default Simulate Point Process Models using the Metropolis-Hastings Algorithm.
rshift.ppp Randomly Shift a Point Pattern
scaletointerval Rescale Data to Lie Between Specified Limits
rmhmodel Define Point Process Model for Metropolis-Hastings Simulation.
rpoispp Generate Poisson Point Pattern
rat Ratio object
summary.splitppp Summary of a Split Point Pattern
runifpointOnLines Generate N Uniform Random Points On Line Segments
simulate.lppm Simulate a Fitted Point Process Model on a Linear Network
sessionLibs Print Names and Version Numbers of Libraries Loaded
split.hyperframe Divide Hyperframe Into Subsets and Reassemble
summary.listof Summary of a List of Things
urkiola Urkiola Woods Point Pattern
sporophores Sporophores Data
scanpp Read Point Pattern From Data File
shapley Galaxies in the Shapley Supercluster
simulate.slrm Simulate a Fitted Spatial Logistic Regression Model
vcov.mppm Calculate Variance-Covariance Matrix for Fitted Multiple Point Process Model
simdat Simulated Point Pattern
unnormdensity Weighted kernel smoother
waterstriders Waterstriders data. Three independent replications of a point pattern formed by insects.
update.kppm Update a Fitted Cluster Point Process Model
rshift.splitppp Randomly Shift a List of Point Patterns
rlinegrid Generate grid of parallel lines with random displacement
tiles Extract List of Tiles in a Tessellation
subset.ppp Subset of Point Pattern Satisfying A Condition
vargamma.estK Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
slrm Spatial Logistic Regression
scanLRTS Likelihood Ratio Test Statistic for Scan Test
thomas.estK Fit the Thomas Point Process by Minimum Contrast
unitname Name for Unit of Length
spruces Spruces Point Pattern
update.symbolmap Update a Graphics Symbol Map.
rgbim Create Colour-Valued Pixel Image
split.ppx Divide Multidimensional Point Pattern into Sub-patterns
thomas.estpcf Fit the Thomas Point Process by Minimum Contrast
rotate.ppp Rotate a Point Pattern
rpoisline Generate Poisson Random Line Process
trim.rectangle Cut margins from rectangle
vcov.ppm Variance-Covariance Matrix for a Fitted Point Process Model
union.quad Union of Data and Dummy Points
rshift Random Shift
shift.owin Apply Vector Translation To Window
vcov.slrm Variance-Covariance Matrix for a Fitted Spatial Logistic Regression
tweak.colourmap Change Colour Values in a Colour Map
zapsmall.im Rounding of Pixel Values
rSSI Simulate Simple Sequential Inhibition
textureplot Plot Image Using Texture Fill
triplet.family Triplet Interaction Family
rjitter Random Perturbation of a Point Pattern
update.rmhcontrol Update Control Parameters of Metropolis-Hastings Algorithm
simulate.kppm Simulate a Fitted Cluster Point Process Model
volume Volume of an Object
rounding Detect Numerical Rounding
solutionset Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True
shift.im Apply Vector Translation To Pixel Image
simplepanel Simple Point-and-Click Interface Panels
split.ppp Divide Point Pattern into Sub-patterns
transect.im Pixel Values Along a Transect
residualspaper Data and Code From JRSS Discussion Paper on Residuals
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Nickname Le Hardi
Date 2014-08-27
License GPL (>= 2)
URL http://www.spatstat.org
LazyData true
NeedsCompilation yes
ByteCompile true
Packaged 2014-08-27 10:58:41 UTC; adrian
Repository CRAN
Date/Publication 2014-08-28 07:23:30

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