spatstat v1.39-1

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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
Hybrid Hybrid Interaction Point Process Model
Extract.fasp Extract Subset of Function Array
Extract.linnet Extract Subset of Linear Network
Kdot Multitype K Function (i-to-any)
AreaInter The Area Interaction Point Process Model
Extract.fv Extract or Replace Subset of Function Values
Kmodel K Function or Pair Correlation Function of a Point Process Model
Kmulti Marked K-Function
Extract.im Extract Subset of Image
Extract.splitppp Extract or Replace Sub-Patterns
areaLoss Difference of Disc Areas
Geyer Geyer's Saturation Point Process Model
Extract.solist Extract or Replace Subset of a List of Spatial Objest
Frame Extract or Change the Containing Rectangle of a Spatial Object
DiggleGratton Diggle-Gratton model
Extract.tess Extract or Replace Subset of Tessellation
Fiksel The Fiksel Interaction
Extract.quad Subset of Quadrature Scheme
SatPiece Piecewise Constant Saturated Pairwise Interaction Point Process Model
Jdot Multitype J Function (i-to-any)
F3est Empty Space Function of a Three-Dimensional Point Pattern
Gmulti Marked Nearest Neighbour Distance Function
MultiHard The Multitype Hard Core Point Process Model
Kinhom Inhomogeneous K-function
Lest L-function
Jcross Multitype J Function (i-to-j)
Kcross.inhom Inhomogeneous Cross K Function
Kmulti.inhom Inhomogeneous Marked K-Function
Extract.lpp Extract Subset of Point Pattern on Linear Network
Extract.anylist Extract or Replace Subset of a List of Things
Extract.influence.ppm Extract Subset of Influence Object
Jest Estimate the J-function
Kres Residual K Function
Extract.msr Extract Subset of Signed or Vector Measure
anemones Beadlet Anemones Data
Ginhom Inhomogeneous Nearest Neighbour Function
as.interact Extract Interaction Structure
Gfox Foxall's Distance Functions
Emark Diagnostics for random marking
Replace.im Reset Values in Subset of Image
affine Apply Affine Transformation
Gcross Multitype Nearest Neighbour Distance Function (i-to-j)
as.mask Pixel Image Approximation of a Window
Kest K-function
as.ppp Convert Data To Class ppp
Gdot Multitype Nearest Neighbour Distance Function (i-to-any)
cauchy.estpcf Fit the Neyman-Scott cluster process with Cauchy kernel
Kscaled Locally Scaled K-function
Kmodel.ppm K Function or Pair Correlation Function of Gibbs Point Process model
BadGey Hybrid Geyer Point Process Model
Extract.ppx Extract Subset of Multidimensional Point Pattern
Tstat Third order summary statistic
Kdot.inhom Inhomogeneous Multitype K Dot Function
anova.ppm ANOVA for Fitted Point Process Models
Kmeasure Reduced Second Moment Measure
Linhom L-function
Extract.layered Extract Subset of a Layered Object
as.rectangle Window Frame
Kcom Model Compensator of K Function
Ldot Multitype L-function (i-to-any)
box3 Three-Dimensional Box
G3est Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern
Ldot.inhom Inhomogeneous Multitype L Dot Function
Pairwise Generic Pairwise Interaction model
addvar Added Variable Plot for Point Process Model
areaGain Difference of Disc Areas
distmap.ppp Distance Map of Point Pattern
Smooth.ppp Spatial smoothing of observations at irregular points
amacrine Hughes' Amacrine Cell Data
alltypes Calculate Summary Statistic for All Types in a Multitype Point Pattern
Iest Estimate the I-function
Smooth Spatial smoothing of data
bw.frac Bandwidth Selection Based on Window Geometry
DiggleGatesStibbard Diggle-Gates-Stibbard Point Process Model
as.hyperframe.ppx Extract coordinates and marks of multidimensional point pattern
Window Extract or Change the Window of a Spatial Object
cells Biological Cells Point Pattern
Kmodel.kppm K Function or Pair Correlation Function of Cluster Model or Cox model
LennardJones The Lennard-Jones Potential
density.ppp Kernel Smoothed Intensity of Point Pattern
bounding.box.xy Convex Hull of Points
MultiStrauss The Multitype Strauss Point Process Model
Kest.fft K-function using FFT
as.fv Convert Data To Class fv
Ord Generic Ord Interaction model
bind.fv Combine Function Value Tables
Hardcore The Hard Core Point Process Model
append.psp Combine Two Line Segment Patterns
Extract.listof Extract or Replace Subset of a List of Things
Jinhom Inhomogeneous J-function
Lcross Multitype L-function (cross-type)
Extract.owin Extract Subset of Window
Poisson Poisson Point Process Model
allstats Calculate four standard summary functions of a point pattern.
Saturated Saturated Pairwise Interaction model
as.owin Convert Data To Class owin
crossing.psp Crossing Points of Two Line Segment Patterns
MultiStraussHard The Multitype/Hard Core Strauss Point Process Model
bdist.tiles Distance to Boundary of Window
circumradius Circumradius of a Window
Smoothfun.ppp Smooth Interpolation of Marks as a Spatial Function
as.hyperframe Convert Data to Hyperframe
compareFit Residual Diagnostics for Multiple Fitted Models
chicago Chicago Street Crime Data
StraussHard The Strauss / Hard Core Point Process Model
as.solist Convert List of Two-Dimensional Spatial Objects
copper Berman-Huntington points and lines data
applynbd Apply Function to Every Neighbourhood in a Point Pattern
Softcore The Soft Core Point Process Model
eval.im Evaluate Expression Involving Pixel Images
as.matrix.owin Convert Pixel Image to Matrix
PairPiece The Piecewise Constant Pairwise Interaction Point Process Model
Lcross.inhom Inhomogeneous Cross Type L Function
bw.diggle Cross Validated Bandwidth Selection for Kernel Density
closing Morphological Closing
affine.tess Apply Geometrical Transformation To Tessellation
beginner Print Introduction For Beginners
affine.lpp Apply Geometrical Transformations to Point Pattern on a Linear Network
adaptive.density Intensity Estimate of Point Pattern Using Tessellation
disc Circular Window
affine.im Apply Affine Transformation To Pixel Image
harmonic Basis for Harmonic Functions
add.texture Fill Plot With Texture
effectfun Compute Fitted Effect of a Spatial Covariate in a Point Process Model
berman.test Berman's Tests for Point Process Model
anova.mppm ANOVA for Fitted Multiple Point Process Models
bronzefilter Bronze gradient filter data
bw.stoyan Stoyan's Rule of Thumb for Bandwidth Selection
as.box3 Convert Data to Three-Dimensional Box
bdist.pixels Distance to Boundary of Window
complement.owin Take Complement of a Window
bdist.points Distance to Boundary of Window
Strauss The Strauss Point Process Model
connected.ppp Connected components of a point pattern
as.psp Convert Data To Class psp
as.im Convert to Pixel Image
edges Extract Boundary Edges of a Window.
compatible.fv Test Whether Function Objects Are Compatible
coef.ppm Coefficients of Fitted Point Process Model
as.tess Convert Data To Tessellation
dmixpois Mixed Poisson Distribution
crossdist Pairwise distances
beachcolours Create Colour Scheme for a Range of Numbers
bei Tropical rain forest trees
border Border Region of a Window
affine.psp Apply Affine Transformation To Line Segment Pattern
coords Extract or Change Coordinates of a Spatial or Spatiotemporal Point Pattern
Gres Residual G Function
closepairs.pp3 Close Pairs of Points in 3 Dimensions
diameter Diameter of an Object
as.lpp Convert Data to a Point Pattern on a Linear Network
as.data.frame.psp Coerce Line Segment Pattern to a Data Frame
anylist List of Objects
crossdist.psp Pairwise distances between two different line segment patterns
delaunay.distance Distance on Delaunay Triangulation
centroid.owin Centroid of a window
blur Apply Gaussian Blur to a Pixel Image
ganglia Beta Ganglion Cells in Cat Retina, Old Version
Smooth.msr Smooth a Signed or Vector-Valued Measure
as.mask.psp Convert Line Segment Pattern to Binary Pixel Mask
cdf.test Spatial Distribution Test for Point Pattern or Point Process Model
deriv.fv Calculate Derivative of Function Values
clarkevans.test Clark and Evans Test
as.data.frame.im Convert Pixel Image to Data Frame
intensity.lpp Empirical Intensity of Point Pattern on Linear Network
commonGrid Determine A Common Spatial Domain And Pixel Resolution
clickbox Interactively Define a Rectangle
area.owin Area of a Window
closepairs Close Pairs of Points
integral.im Integral of a Pixel Image
clickppp Interactively Add Points
Triplets The Triplet Point Process Model
clip.infline Intersect Infinite Straight Lines with a Window
dummify Convert Data to Numeric Values by Constructing Dummy Variables
as.matrix.im Convert Pixel Image to Matrix or Array
anova.lppm ANOVA for Fitted Point Process Models on Linear Network
affine.linnet Apply Geometrical Transformations to a Linear Network
diagnose.ppm Diagnostic Plots for Fitted Point Process Model
by.ppp Apply a Function to a Point Pattern Broken Down by Factor
compatible.fasp Test Whether Function Arrays Are Compatible
contour.im Contour plot of pixel image
discs Union of Discs
bw.scott Scott's Rule for Bandwidth Selection for Kernel Density
delaunay Delaunay Triangulation of Point Pattern
dclf.test Diggle-Cressie-Loosmore-Ford and Maximum Absolute Deviation Tests
betacells Beta Ganglion Cells in Cat Retina
convolve.im Convolution of Pixel Images
default.dummy Generate a Default Pattern of Dummy Points
lppm Fit Point Process Model to Point Pattern on Linear Network
density.splitppp Kernel Smoothed Intensity of Split Point Pattern
crossdist.default Pairwise distances between two different sets of points
fv Create a Function Value Table
diameter.owin Diameter of a Window
crossdist.ppx Pairwise Distances Between Two Different Multi-Dimensional Point Patterns
default.rmhcontrol Set Default Control Parameters for Metropolis-Hastings Algorithm.
harmonise Make Objects Compatible
corners Corners of a rectangle
clarkevans Clark and Evans Aggregation Index
connected Connected components
WindowOnly Extract Window of Spatial Object
affine.ppp Apply Affine Transformation To Point Pattern
nndist Nearest neighbour distances
persp.im Perspective Plot of Pixel Image
eval.linim Evaluate Expression Involving Pixel Images on Linear Network
edge.Trans Translation Edge Correction
colourtools Convert and Compare Colours in Different Formats
bramblecanes Hutchings' Bramble Canes data
by.im Apply Function to Image Broken Down by Factor
cut.im Convert Pixel Image from Numeric to Factor
colourmap Colour Lookup Tables
coef.mppm Coefficients of Point Process Model Fitted to Multiple Point Patterns
exactMPLEstrauss Exact Maximum Pseudolikelihood Estimate for Stationary Strauss Process
intersect.tess Intersection of Two Tessellations
dilated.areas Areas of Morphological Dilations
compatible Test Whether Objects Are Compatible
collapse.fv Collapse Several Function Tables into One
eval.fv Evaluate Expression Involving Functions
distfun Distance Map as a Function
dummy.ppm Extract Dummy Points Used to Fit a Point Process Model
eval.fasp Evaluate Expression Involving Function Arrays
diameter.box3 Geometrical Calculations for Three-Dimensional Box
as.ppm Extract Fitted Point Process Model
bw.smoothppp Cross Validated Bandwidth Selection for Spatial Smoothing
edges2vees List Dihedral Triples in a Graph
kppm Fit Cluster or Cox Point Process Model
endpoints.psp Endpoints of Line Segment Pattern
chop.tess Subdivide a Window or Tessellation using a Set of Lines
kaplan.meier Kaplan-Meier Estimator using Histogram Data
fitted.slrm Fitted Probabilities for Spatial Logistic Regression
envelope.pp3 Simulation Envelopes of Summary Function for 3D Point Pattern
letterR Window in Shape of Letter R
pcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-Type)
iplot Point and Click Interface for Displaying Spatial Data
hyperframe Hyper Data Frame
lgcp.estpcf Fit a Log-Gaussian Cox Point Process by Minimum Contrast
is.convex Test Whether a Window is Convex
increment.fv Increments of a Function
mucosa Cells in Gastric Mucosa
concatxy Concatenate x,y Coordinate Vectors
logLik.slrm Loglikelihood of Spatial Logistic Regression
dilation Morphological Dilation
dfbetas.ppm Parameter influence measure
is.rectangle Determine Type of Window
gauss.hermite Gauss-Hermite Quadrature Approximation to Expectation for Normal Distribution
intensity.ppm Intensity of Fitted Point Process Model
linearpcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
clickpoly Interactively Define a Polygon
is.marked Test Whether Marks Are Present
dirichlet Dirichlet Tessellation of Point Pattern
cut.ppp Classify Points in a Point Pattern
lpp Create Point Pattern on Linear Network
print.psp Print Brief Details of a Line Segment Pattern Dataset
foo Foo is Not a Variable
interp.colourmap Interpolate smoothly between specified colours
envelope.envelope Recompute Envelopes
pool.envelope Pool Data from Several Envelopes
heather Diggle's Heather Data
linearpcfdot Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
grow.rectangle Add margins to rectangle
methods.kppm Methods for Cluster Point Process Models
pairorient Point Pair Orientation Distribution
ppm.object Class of Fitted Point Process Models
methods.rhohat Methods for Intensity Functions of Spatial Covariate
erosion Morphological Erosion
bw.relrisk Cross Validated Bandwidth Selection for Relative Risk Estimation
distmap.owin Distance Map of Window
nndist.pp3 Nearest neighbour distances in three dimensions
distmap.psp Distance Map of Line Segment Pattern
duplicated.ppp Determine Duplicated Points in a Spatial Point Pattern
is.subset.owin Determine Whether One Window is Contained In Another
lut Lookup Tables
harmonise.im Make Pixel Images Compatible
idw Inverse-distance weighted smoothing of observations at irregular points
is.marked.ppm Test Whether A Point Process Model is Marked
clickjoin Interactively join vertices on a plot
linim Create Pixel Image on Linear Network
methods.linnet Methods for Linear Networks
quadrat.test Dispersion Test for Spatial Point Pattern Based on Quadrat Counts
plot.listof Plot a List of Things
envelope Simulation Envelopes of Summary Function
convexhull.xy Convex Hull of Points
fryplot Fry Plot of Point Pattern
hyytiala Scots pines and other trees at Hyytiala
envelope.lpp Envelope for Point Patterns on Linear Network
incircle Find Largest Circle Inside Window
hist.im Histogram of Pixel Values in an Image
is.hybrid Test Whether Object is a Hybrid
is.lpp Test Whether An Object Is A Point Pattern on a Linear Network
methods.objsurf Methods for Objective Function Surfaces
markcorr Mark Correlation Function
distfun.lpp Distance Map on Linear Network
flipxy Exchange X and Y Coordinates
plot.tess Plot a tessellation
harmonise.fv Make Function Tables Compatible
methods.lppm Methods for Fitted Point Process Models on a Linear Network
plot.hyperframe Plot Entries in a Hyperframe
im.object Class of Images
invoke.symbolmap Plot Data Using Graphics Symbol Map
marktable Tabulate Marks in Neighbourhood of Every Point in a Point Pattern
fvnames Abbreviations for Groups of Columns in Function Value Table
linfun Function on a Linear Network
domain Extract the Domain of any Spatial Object
finpines Pine saplings in Finland.
convexhull Convex Hull
hybrid.family Hybrid Interaction Family
is.im Test Whether An Object Is A Pixel Image
rpoispp Generate Poisson Point Pattern
deltametric Delta Metric
rpoint Generate N Random Points
is.stationary Recognise Stationary and Poisson Point Process Models
influence.ppm Influence Measure for Spatial Point Process Model
midpoints.psp Midpoints of Line Segment Pattern
linearmarkequal Mark Connection Function for Multitype Point Pattern on Linear Network
nnfun Nearest Neighbour Index Map as a Function
nndist.lpp Nearest neighbour distances on a linear network
is.owin Test Whether An Object Is A Window
gridcentres Rectangular grid of points
lgcp.estK Fit a Log-Gaussian Cox Point Process by Minimum Contrast
nearest.raster.point Find Pixel Nearest to a Given Point
is.multitype.ppm Test Whether A Point Process Model is Multitype
japanesepines Japanese Pines Point Pattern
edge.Ripley Ripley's Isotropic Edge Correction
lineardisc Compute Disc of Given Radius in Linear Network
scanLRTS Likelihood Ratio Test Statistic for Scan Test
intersect.owin Intersection, Union or Set Subtraction of Two Windows
imcov Spatial Covariance of a Pixel Image
is.dppm Recognise Fitted Determinantal Point Process Models
murchison Murchison gold deposits
fitin.ppm Extract the Interaction from a Fitted Point Process Model
rescale Convert dataset to another unit of length
rotate.owin Rotate a Window
eem Exponential Energy Marks
pcfinhom Inhomogeneous Pair Correlation Function
latest.news Print News About Latest Version of Package
methods.fii Methods for Fitted Interactions
methods.slrm Methods for Spatial Logistic Regression Models
ewcdf Weighted Empirical Cumulative Distribution Function
marks.psp Marks of a Line Segment Pattern
ippm Fit Point Process Model Involving Irregular Trend Parameters
layered Create List of Plotting Layers
lansing Lansing Woods Point Pattern
leverage.ppm Leverage Measure for Spatial Point Process Model
linearmarkconnect Mark Connection Function for Multitype Point Pattern on Linear Network
markvario Mark Variogram
marks Marks of a Point Pattern
simplify.owin Approximate a Polygon by a Simpler Polygon
integral.msr Integral of a Measure
overlap.owin Compute Area of Overlap
pppmatching Create a Point Matching
methods.boxx Methods for Multi-Dimensional Box
inside.owin Test Whether Points Are Inside A Window
lengths.psp Lengths of Line Segments
linearK Linear K Function
progressreport Print Progress Reports
layerplotargs Extract or Replace the Plot Arguments of a Layered Object
redwoodfull California Redwoods Point Pattern (Entire Dataset)
gorillas Gorilla Nesting Sites
nncorr Nearest-Neighbour Correlation Indices of Marked Point Pattern
texturemap Texture Map
crossdist.pp3 Pairwise distances between two different three-dimensional point patterns
pairdist.default Pairwise distances
plot.ppp plot a Spatial Point Pattern
fardist Farthest Distance to Boundary of Window
hopskel Hopkins-Skellam Test
plot.bermantest Plot Result of Berman Test
pppmatching.object Class of Point Matchings
methods.layered Methods for Layered Objects
miplot Morisita Index Plot
npfun Dummy Function Returns Number of Points
model.depends Identify Covariates Involved in each Model Term
mincontrast Method of Minimum Contrast
urkiola Urkiola Woods Point Pattern
nnwhich Nearest neighbour
rescale.im Convert Pixel Image to Another Unit of Length
multiplicity.ppp Count Multiplicity of Duplicate Points
identify.ppp Identify Points in a Point Pattern
nearestsegment Find Line Segment Nearest to Each Point
linearKdot.inhom Inhomogeneous multitype K Function (Dot-type) for Linear Point Pattern
linearKdot Multitype K Function (Dot-type) for Linear Point Pattern
parres Partial Residuals for Point Process Model
nncross.pp3 Nearest Neighbours Between Two Patterns in 3D
linearKinhom Inhomogeneous Linear K Function
localK Neighbourhood density function
layout.boxes Generate a Row or Column Arrangement of Rectangles.
nndist.psp Nearest neighbour distances between line segments
quantile.ewcdf Quantiles of Weighted Empirical Cumulative Distribution Function
pairdist.pp3 Pairwise distances in Three Dimensions
linearpcfinhom Inhomogeneous Linear Pair Correlation Function
nbfires Point Patterns of New Brunswick Forest Fires
pcf.ppp Pair Correlation Function of Point Pattern
rlabel Random Re-Labelling of Point Pattern
model.matrix.slrm Extract Design Matrix from Spatial Logistic Regression Model
intensity.quadratcount Intensity Estimates Using Quadrat Counts
plot.msr Plot a Signed or Vector-Valued Measure
pairs.im Scatterplot Matrix for Pixel Images
linearpcf Linear Pair Correlation Function
summary.solist Summary of a List of Spatial Objects
methods.rho2hat Methods for Intensity Functions of Two Spatial Covariates
model.images Compute Images of Constructed Covariates
nztrees New Zealand Trees Point Pattern
pcf3est Pair Correlation Function of a Three-Dimensional Point Pattern
im.apply Apply Function Pixelwise to List of Images
interp.im Interpolate a Pixel Image
nnclean Nearest Neighbour Clutter Removal
plot.cdftest Plot a Spatial Distribution Test
lurking Lurking variable plot
linearKcross.inhom Inhomogeneous multitype K Function (Cross-type) for Linear Point Pattern
is.empty Test Whether An Object Is Empty
ponderosa Ponderosa Pine Tree Point Pattern
nnmap K-th Nearest Point Map
osteo Osteocyte Lacunae Data: Replicated Three-Dimensional Point Patterns
ppx Multidimensional Space-Time Point Pattern
pcfdot Multitype pair correlation function (i-to-any)
plot.pp3 Plot a three-dimensional point pattern
methods.lpp Methods for Point Patterns on a Linear Network
npoints Number of Points in a Point Pattern
linearpcfcross Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
pixelcentres Extract Pixel Centres as Point Pattern
localKinhom Inhomogeneous Neighbourhood Density Function
tweak.colourmap Change Colour Values in a Colour Map
padimage Pad the Border of a Pixel Image
plot.linnet Plot a linear network
plot.mppm plot a Fitted Multiple Point Process Model
rQuasi Generate Quasirandom Point Pattern in Given Window
methods.linfun Methods for Functions on Linear Network
plot.solist Plot a List of Spatial Objects
mean.im Maximum, Minimum, Mean, Median, Range or Sum of Pixel Values in an Image
nnfun.lpp Nearest Neighbour Map on Linear Network
ord.family Ord Interaction Process Family
rat Ratio object
pool.fasp Pool Data from Several Function Arrays
plot.envelope Plot a Simulation Envelope
project2set Find Nearest Point in a Region
matchingdist Distance for a Point Pattern Matching
rpoislinetess Poisson Line Tessellation
rpoisline Generate Poisson Random Line Process
runifpoint3 Generate N Uniform Random Points in Three Dimensions
plot.linim Plot Pixel Image on Linear Network
nnwhich.lpp Identify Nearest Neighbours on a Linear Network
shift.im Apply Vector Translation To Pixel Image
methods.units Methods for Units
objsurf Objective Function Surface
summary.splitppp Summary of a Split Point Pattern
pixellate.owin Convert Window to Pixel Image
pixelquad Quadrature Scheme Based on Pixel Grid
print.owin Print Brief Details of a Spatial Window
rmhstart Determine Initial State for Metropolis-Hastings Simulation.
psp Create a Line Segment Pattern
plot.im Plot a Pixel Image
profilepl Profile Maximum Pseudolikelihood
quadrat.test.mppm Chi-Squared Test for Multiple Point Process Model Based on Quadrat Counts
nnwhich.pp3 Nearest neighbours in three dimensions
psst Pseudoscore Diagnostic For Fitted Model against General Alternative
runifpoint Generate N Uniform Random Points
pointsOnLines Place Points Evenly Along Specified Lines
rlinegrid Generate grid of parallel lines with random displacement
plot.psp plot a Spatial Line Segment Pattern
rpoisppOnLines Generate Poisson Point Pattern on Line Segments
triplet.family Triplet Interaction Family
intensity.ppp Empirical Intensity of Point Pattern
plot.scan.test Plot Result of Scan Test
discpartarea Area of Part of Disc
plot.splitppp Plot a List of Point Patterns
volume Volume of an Object
project2segment Move Point To Nearest Line
nsegments Number of Line Segments in a Line Segment Pattern
split.im Divide Image Into Sub-images
maxnndist Compute Minimum or Maximum Nearest-Neighbour Distance
qqplot.ppm Q-Q Plot of Residuals from Fitted Point Process Model
rMaternII Simulate Matern Model II
predict.mppm Prediction for Fitted Multiple Point Process Model
pcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Type-i-To-Any-Type)
plot.quad Plot a Spatial Quadrature Scheme
residuals.ppm Residuals for Fitted Point Process Model
linearpcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
predict.ppm Prediction from a Fitted Point Process Model
rDiggleGratton Perfect Simulation of the Diggle-Gratton Process
plot.symbolmap Plot a Graphics Symbol Map
pool.quadrattest Pool Several Quadrat Tests
quad.object Class of Quadrature Schemes
rthin Random Thinning
rNeymanScott Simulate Neyman-Scott Process
plot.texturemap Plot a Texture Map
ppm Fit Point Process Model to Data
rhohat Smoothing Estimate of Covariate Transformation
pyramidal Pyramidal Neurons in Cingulate Cortex
rotate.ppp Rotate a Point Pattern
rThomas Simulate Thomas Process
perimeter Perimeter Length of Window
print.quad Print a Quadrature Scheme
runifdisc Generate N Uniform Random Points in a Disc
rotate.psp Rotate a Line Segment Pattern
quantile.im Sample Quantiles of Pixel Image
plot.fv Plot Function Values
project.ppm Force Point Process Model to be Valid
longleaf Longleaf Pines Point Pattern
quadratresample Resample a Point Pattern by Resampling Quadrats
simba Simulated data from a two-group experiment with replication within each group.
pairsat.family Saturated Pairwise Interaction Point Process Family
pixellate.ppp Convert Point Pattern to Pixel Image
shift.owin Apply Vector Translation To Window
rStraussHard Perfect Simulation of the Strauss-Hardcore Process
rSSI Simulate Simple Sequential Inhibition
runifpointOnLines Generate N Uniform Random Points On Line Segments
pairdist.psp Pairwise distances between line segments
reach Interaction Distance of a Point Process
plot.lpp Plot Point Pattern on Linear Network
reduced.sample Reduced Sample Estimator using Histogram Data
methods.pp3 Methods for three-dimensional point patterns
redwood California Redwoods Point Pattern (Ripley's Subset)
simdat Simulated Point Pattern
vcov.kppm Variance-Covariance Matrix for a Fitted Cluster Point Process Model
pixellate Convert Spatial Object to Pixel Image
rescale.psp Convert Line Segment Pattern to Another Unit of Length
rescale.ppp Convert Point Pattern to Another Unit of Length
plot.ppm plot a Fitted Point Process Model
reload.or.compute Compute Unless Previously Saved
subfits Extract List of Individual Point Process Models
quasirandom Quasirandom Patterns
psstG Pseudoscore Diagnostic For Fitted Model against Saturation Alternative
tess Create a Tessellation
plot.kppm Plot a fitted cluster point process
textureplot Plot Image Using Texture Fill
predict.kppm Prediction from a Fitted Cluster Point Process Model
quadrat.test.splitppp Dispersion Test of CSR for Split Point Pattern Based on Quadrat Counts
plot.quadratcount Plot Quadrat Counts
rescale.owin Convert Window to Another Unit of Length
raster.x Cartesian Coordinates for a Pixel Raster
rmh Simulate point patterns using the Metropolis-Hastings algorithm.
sessionLibs Print Names and Version Numbers of Libraries Loaded
spatstat-package The Spatstat Package
unitname Name for Unit of Length
spatstat-internal Internal spatstat functions
scan.test Spatial Scan Test
spruces Spruces Point Pattern
summary.ppm Summarizing a Fitted Point Process Model
spatstat-deprecated Deprecated spatstat functions
rCauchy Simulate Neyman-Scott Point Process with Cauchy cluster kernel
sharpen Data Sharpening of Point Pattern
plot.quadrattest Display the result of a quadrat counting test.
model.frame.ppm Extract the Variables in a Point Process Model
plot.fasp Plot a Function Array
rmhmodel Define Point Process Model for Metropolis-Hastings Simulation.
range.fv Range of Function Values
nndensity.ppp Estimate Intensity of Point Pattern Using Nearest Neighbour Distances
summary.listof Summary of a List of Things
rho2hat Smoothed Relative Density of Pairs of Covariate Values
spokes Spokes pattern of dummy points
tiles Extract List of Tiles in a Tessellation
rMaternI Simulate Matern Model I
ppp Create a Point Pattern
rMosaicField Mosaic Random Field
update.ppm Update a Fitted Point Process Model
rmhcontrol Set Control Parameters for Metropolis-Hastings Algorithm.
rMosaicSet Mosaic Random Set
rmpoispp Generate Multitype Poisson Point Pattern
sidelengths.owin Side Lengths of Enclosing Rectangle of a Window
rPoissonCluster Simulate Poisson Cluster Process
transect.im Pixel Values Along a Transect
rshift.psp Randomly Shift a Line Segment Pattern
rmh.ppm Simulate from a Fitted Point Process Model
moribund Outdated Functions
rjitter Random Perturbation of a Point Pattern
density.psp Kernel Smoothing of Line Segment Pattern
rmpoint Generate N Random Multitype Points
solist List of Two-Dimensional Spatial Objects
nncross Nearest Neighbours Between Two Patterns
spatstat.options Internal Options in Spatstat Package
residualspaper Data and Code From JRSS Discussion Paper on Residuals
plot.anylist Plot a List of Things
rmh.default Simulate Point Process Models using the Metropolis-Hastings Algorithm.
subset.ppp Subset of Point Pattern Satisfying A Condition
rknn Theoretical Distribution of Nearest Neighbour Distance
superimpose Superimpose Several Geometric Patterns
rotate.im Rotate a Pixel Image
square Square Window
rounding Detect Numerical Rounding
sumouter Compute Quadratic Forms
predict.lppm Predict Point Process Model on Linear Network
rshift.splitppp Randomly Shift a List of Point Patterns
runiflpp Uniform Random Points on a Linear Network
pixellate.psp Convert Line Segment Pattern to Pixel Image
rVarGamma Simulate Neyman-Scott Point Process with Variance Gamma cluster kernel
runifpointx Generate N Uniform Random Points in Any Dimensions
with.fv Evaluate an Expression in a Function Table
union.quad Union of Data and Dummy Points
rstrat Simulate Stratified Random Point Pattern
symbolmap Graphics Symbol Map
rMatClust Simulate Matern Cluster Process
scanpp Read Point Pattern From Data File
summary.owin Summary of a Spatial Window
residuals.mppm Residuals for Point Process Model Fitted to Multiple Point Patterns
rcell Simulate Baddeley-Silverman Cell Process
unmark Remove Marks
scaletointerval Rescale Data to Lie Between Specified Limits
waka Trees in Waka national park
relrisk Nonparametric Estimate of Spatially-Varying Relative Risk
pppdist Distance Between Two Point Patterns
ripras Estimate window from points alone
timed Record the Computation Time
vcov.ppm Variance-Covariance Matrix for a Fitted Point Process Model
rgbim Create Colour-Valued Pixel Image
simplenet Simple Example of Linear Network
rsyst Simulate systematic random point pattern
valid.ppm Check Whether Point Process Model is Valid
eroded.areas Areas of Morphological Erosions
dirichlet.vertices Vertices of Dirichlet Tessellation
plot.lppm Plot a Fitted Point Process Model on a Linear Network
update.rmhcontrol Update Control Parameters of Metropolis-Hastings Algorithm
with.hyperframe Evaluate an Expression in Each Row of a Hyperframe
rmhmodel.ppm Interpret Fitted Model for Metropolis-Hastings Simulation.
vargamma.estpcf Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
rshift.ppp Randomly Shift a Point Pattern
slrm Spatial Logistic Regression
waterstriders Waterstriders data. Three independent replications of a point pattern formed by insects.
quadscheme Generate a Quadrature Scheme from a Point Pattern
simulate.slrm Simulate a Fitted Spatial Logistic Regression Model
rescue.rectangle Convert Window Back To Rectangle
shift Apply Vector Translation
setcov Set Covariance of a Window
summary.quad Summarizing a Quadrature Scheme
will.expand Test Expansion Rule
round.ppp Apply Numerical Rounding to Spatial Coordinates
simplepanel Simple Point-and-Click Interface Panels
simulate.kppm Simulate a Fitted Cluster Point Process Model
summary.psp Summary of a Line Segment Pattern Dataset
stieltjes Compute Integral of Function Against Cumulative Distribution
superimpose.lpp Superimpose Several Point Patterns on Linear Network
swedishpines Swedish Pines Point Pattern
Ksector Sector K-function
varblock Estimate Variance of Summary Statistic by Subdivision
methods.ppx Methods for Multidimensional Space-Time Point Patterns
simulate.ppm Simulate a Fitted Gibbs Point Process Model
vcov.mppm Calculate Variance-Covariance Matrix for Fitted Multiple Point Process Model
sporophores Sporophores Data
Smooth.fv Apply Smoothing to Function Values
selfcrossing.psp Crossing Points in a Line Segment Pattern
rotmean Rotational Average of a Pixel Image
shift.ppp Apply Vector Translation To Point Pattern
split.ppx Divide Multidimensional Point Pattern into Sub-patterns
anova.slrm Analysis of Deviance for Spatial Logistic Regression Models
tilenames Names of Tiles in a Tessellation
as.data.frame.ppp Coerce Point Pattern to a Data Frame
shapley Galaxies in the Shapley Supercluster
quadratcount Quadrat counting for a point pattern
coef.slrm Coefficients of Fitted Spatial Logistic Regression Model
trim.rectangle Cut margins from rectangle
tile.areas Compute Areas of Tiles in a Tessellation
stratrand Stratified random point pattern
vcov.slrm Variance-Covariance Matrix for a Fitted Spatial Logistic Regression
owin Create a Window
formula.fv Extract or Change the Plot Formula for a Function Value Table
shift.psp Apply Vector Translation To Line Segment Pattern
summary.anylist Summary of a List of Things
nnmark Mark of Nearest Neighbour
suffstat Sufficient Statistic of Point Process Model
unnormdensity Weighted kernel smoother
dirichlet.weights Compute Quadrature Weights Based on Dirichlet Tessellation
update.symbolmap Update a Graphics Symbol Map.
ellipse Elliptical Window.
diameter.boxx Geometrical Calculations for Multi-Dimensional Box
istat Point and Click Interface for Exploratory Analysis of Point Pattern
expand.owin Apply Expansion Rule
summary.ppp Summary of a Point Pattern Dataset
whist Weighted Histogram
fitted.mppm Fitted Conditional Intensity for Multiple Point Process Model
pairdist.ppp Pairwise distances
fitted.ppm Fitted Conditional Intensity for Point Process Model
is.ppp Test Whether An Object Is A Point Pattern
km.rs Kaplan-Meier and Reduced Sample Estimator using Histograms
logLik.mppm Log Likelihood for Poisson Point Process Model
im Create a Pixel Image Object
pairdist.lpp Pairwise shortest-path distances between points on a linear network
perspPoints Draw Points or Lines on a Surface Viewed in Perspective
opening Morphological Opening
plot.layered Layered Plot
predict.slrm Predicted or Fitted Values from Spatial Logistic Regression
rHardcore Perfect Simulation of the Hardcore Process
rmhexpand Specify Simulation Window or Expansion Rule
spatialcdf Spatial Cumulative Distribution Function
summary.im Summarizing a Pixel Image
logLik.ppm Log Likelihood and AIC for Point Process Model
methods.funxy Methods for Spatial Functions
Extract.psp Extract Subset of Line Segment Pattern
Fest Estimate the Empty Space Function or its Hazard Rate
as.linim Convert to Pixel Image on Linear Network
boundingbox Bounding Box of a Window, Image, or Point Pattern
bw.ppl Likelihood Cross Validation Bandwidth Selection for Kernel Density
cauchy.estK Fit the Neyman-Scott cluster process with Cauchy kernel
data.ppm Extract Original Data from a Fitted Point Process Model
chorley Chorley-Ribble Cancer Data
diameter.linnet Circumradius and Diameter of a Linear Network
distmap Distance Map
distcdf Distribution Function of Interpoint Distance
gordon People in Gordon Square
funxy Spatial Function Class
fv.object Function Value Table
gridweights Compute Quadrature Weights Based on Grid Counts
identify.psp Identify Segments in a Line Segment Pattern
improve.kppm Improve Intensity Estimate of Fitted Cluster Point Process Model
hamster Aherne's hamster tumour data
intensity Intensity of a Dataset or a Model
linearKcross Multitype K Function (Cross-type) for Linear Point Pattern
matclust.estpcf Fit the Matern Cluster Point Process by Minimum Contrast Using Pair Correlation
matclust.estK Fit the Matern Cluster Point Process by Minimum Contrast
nncross.lpp Nearest Neighbours on a Linear Network
pcf.fv Pair Correlation Function obtained from K Function
pcfmulti Marked pair correlation function
plot.colourmap Plot a Colour Map
panel.contour Panel Plots using Colour Image or Contour Lines
nndist.ppx Nearest Neighbour Distances in Any Dimensions
plot.owin Plot a Spatial Window
plot.slrm Plot a Fitted Spatial Logistic Regression
quadrats Divide Region into Quadrats
rLGCP Simulate Log-Gaussian Cox Process
scalardilate Apply Scalar Dilation
rpoispp3 Generate Poisson Point Pattern in Three Dimensions
unique.ppp Extract Unique Points from a Spatial Point Pattern
thomas.estpcf Fit the Thomas Point Process by Minimum Contrast
vargamma.estK Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
Finhom Inhomogeneous Empty Space Function
LambertW Lambert's W Function
OrdThresh Ord's Interaction model
angles.psp Orientation Angles of Line Segments
as.data.frame.hyperframe Coerce Hyperframe to Data Frame
as.polygonal Convert a Window to a Polygonal Window
cbind.hyperframe Combine Hyperframes by Rows or by Columns
as.layered Convert Data To Layered Object
Concom The Connected Component Process Model
Extract.ppp Extract or Replace Subset of Point Pattern
Gcom Model Compensator of Nearest Neighbour Function
Gest Nearest Neighbour Distance Function G
K3est K-function of a Three-Dimensional Point Pattern
Extract.leverage.ppm Extract Subset of Leverage Object
Kcross Multitype K Function (Cross-type)
affine.owin Apply Affine Transformation To Window
ants Harkness-Isham ants' nests data
cdf.test.mppm Spatial Distribution Test for Multiple Point Process Model
clusterset Allard-Fraley Estimator of Cluster Feature
demohyper Demonstration Example of Hyperframe of Spatial Data
discretise Safely Convert Point Pattern Window to Binary Mask
edges2triangles List Triangles in a Graph
hextess Hexagonal Grid or Tessellation
levelset Level Set of a Pixel Image
lohboot Bootstrap Confidence Bands for Summary Function
markcorrint Mark Correlation Integral
methods.box3 Methods for Three-Dimensional Box
model.matrix.ppm Extract Design Matrix from Point Process Model
msr Signed or Vector-Valued Measure
pairdist Pairwise distances
owin.object Class owin
pairwise.family Pairwise Interaction Process Family
pcf.fasp Pair Correlation Function obtained from array of K functions
pcfcross Multitype pair correlation function (cross-type)
plot.influence.ppm Plot Influence Measure
plot.leverage.ppm Plot Leverage Function
pool Pool Data
psp.object Class of Line Segment Patterns
crossdist.ppp Pairwise distances between two different point patterns
psstA Pseudoscore Diagnostic For Fitted Model against Area-Interaction Alternative
compatible.im Test Whether Pixel Images Are Compatible
rGaussPoisson Simulate Gauss-Poisson Process
contour.listof Plot a List of Things
dclf.progress Progress Plot of Test of Spatial Pattern
crossdist.lpp Pairwise distances between two point patterns on a linear network
boxx Multi-Dimensional Box
flu Influenza Virus Proteins
humberside Humberside Data on Childhood Leukaemia and Lymphoma
inforder.family Infinite Order Interaction Family
infline Infinite Straight Lines
is.ppm Test Whether An Object Is A Fitted Point Process Model
pairdist.ppx Pairwise Distances in Any Dimensions
pcf Pair Correlation Function
paracou Kimboto trees at Paracou, French Guiana
ppm.ppp Fit Point Process Model to Point Pattern Data
solutionset Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True
split.hyperframe Divide Hyperframe Into Subsets and Reassemble
thomas.estK Fit the Thomas Point Process by Minimum Contrast
update.kppm Update a Fitted Cluster Point Process Model
is.multitype.ppp Test Whether A Point Pattern is Multitype
rcellnumber Generate Random Numbers of Points for Cell Process
rDGS Perfect Simulation of the Diggle-Gates-Stibbard Process
reflect Reflect In Origin
rmhmodel.default Build Point Process Model for Metropolis-Hastings Simulation.
Extract.hyperframe Extract or Replace Subset of Hyperframe
Jmulti Marked J Function
Hest Spherical Contact Distribution Function
as.function.fv Convert Function Value Table to Function
clmfires Castilla-La Mancha Forest Fires
default.expand Default Expansion Rule for Simulation of Model
demopat Artificial Data Point Pattern
fasp.object Function Arrays for Spatial Patterns
formula.ppm Model Formulae for Gibbs Point Process Models
is.marked.ppp Test Whether A Point Pattern is Marked
localpcf Local pair correlation function
linnet Create a Linear Network
markconnect Mark Connection Function
markstat Summarise Marks in Every Neighbourhood in a Point Pattern
nnwhich.ppx Nearest Neighbours in Any Dimensions
plot.plotppm Plot a plotppm Object Created by plot.ppm
pool.rat Pool Data from Several Ratio Objects
pp3 Three Dimensional Point Pattern
ppp.object Class of Point Patterns
print.ppm Print a Fitted Point Process Model
print.im Print Brief Details of an Image
quad.ppm Extract Quadrature Scheme Used to Fit a Point Process Model
rStrauss Perfect Simulation of the Strauss Process
quadscheme.logi Generate a Logistic Regression Quadrature Scheme from a Point Pattern
rpoislpp Poisson Point Process on a Linear Network
simulate.lppm Simulate a Fitted Point Process Model on a Linear Network
vertices Vertices of a Window
stienen Stienen Diagram
zapsmall.im Rounding of Pixel Values
mppm Fit Point Process Model to Several Point Patterns
rotate Rotate
rmhmodel.list Define Point Process Model for Metropolis-Hastings Simulation.
run.simplepanel Run Point-and-Click Interface
rshift Random Shift
split.ppp Divide Point Pattern into Sub-patterns
rpoisppx Generate Poisson Point Pattern in Any Dimensions
vesicles Vesicles Data
periodify Make Periodic Copies of a Spatial Pattern
print.ppp Print Brief Details of a Point Pattern Dataset
is.multitype Test whether Object is Multitype
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Nickname Wrath of Grapes
Date 2014-10-24
License GPL (>= 2)
URL http://www.spatstat.org
LazyData true
NeedsCompilation yes
ByteCompile true
Packaged 2014-10-24 07:10:11 UTC; adrian
Repository CRAN
Date/Publication 2014-10-24 10:52:35

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