spatstat v1.40-0

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by Adrian Baddeley

Spatial Point Pattern Analysis, Model-fitting, Simulation, Tests

Comprehensive toolbox 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
rescale.psp Convert Line Segment Pattern to Another Unit of Length
rmhmodel.default Build Point Process Model for Metropolis-Hastings Simulation.
rpoint Generate N Random Points
rshift Random Shift
residuals.mppm Residuals for Point Process Model Fitted to Multiple Point Patterns
runifdisc Generate N Uniform Random Points in a Disc
runiflpp Uniform Random Points on a Linear Network
rhohat Smoothing Estimate of Covariate Transformation
shift.im Apply Vector Translation To Pixel Image
rmh.ppm Simulate from a Fitted Point Process Model
rmhexpand Specify Simulation Window or Expansion Rule
sidelengths.owin Side Lengths of Enclosing Rectangle of a Window
subset.ppp Subset of Point Pattern Satisfying A Condition
sessionLibs Print Names and Version Numbers of Libraries Loaded
tweak.colourmap Change Colour Values in a Colour Map
rpoislpp Poisson Point Process on a Linear Network
valid.ppm Check Whether Point Process Model is Valid
Extract.fv Extract or Replace Subset of Function Values
rshift.splitppp Randomly Shift a List of Point Patterns
shift.owin Apply Vector Translation To Window
simulate.slrm Simulate a Fitted Spatial Logistic Regression Model
sporophores Sporophores Data
spatstat-package The Spatstat Package
simplify.owin Approximate a Polygon by a Simpler Polygon
Extract.hyperframe Extract or Replace Subset of Hyperframe
rescale.owin Convert Window to Another Unit of Length
spatialcdf Spatial Cumulative Distribution Function
spatstat-deprecated Deprecated spatstat functions
split.im Divide Image Into Sub-images
Jmulti Marked J Function
rounding Detect Numerical Rounding
Kmulti.inhom Inhomogeneous Marked K-Function
affine Apply Affine Transformation
update.ppm Update a Fitted Point Process Model
simulate.lppm Simulate a Fitted Point Process Model on a Linear Network
spatstat-internal Internal spatstat functions
Geyer Geyer's Saturation Point Process Model
summary.solist Summary of a List of Spatial Objects
Hybrid Hybrid Interaction Point Process Model
anova.mppm ANOVA for Fitted Multiple Point Process Models
rescale.ppp Convert Point Pattern to Another Unit of Length
summary.ppm Summarizing a Fitted Point Process Model
Kmodel.kppm K Function or Pair Correlation Function of Cluster Model or Cox model
solutionset Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True
as.data.frame.hyperframe Coerce Hyperframe to Data Frame
Kcom Model Compensator of K Function
slrm Spatial Logistic Regression
tilenames Names of Tiles in a Tessellation
rmh.default Simulate Point Process Models using the Metropolis-Hastings Algorithm.
round.ppp Apply Numerical Rounding to Spatial Coordinates
Kest.fft K-function using FFT
Ldot Multitype L-function (i-to-any)
update.symbolmap Update a Graphics Symbol Map.
relrisk Estimate of Spatially-Varying Relative Risk
volume Volume of an Object
tiles Extract List of Tiles in a Tessellation
with.fv Evaluate an Expression in a Function Table
rmhmodel Define Point Process Model for Metropolis-Hastings Simulation.
Extract.ppx Extract Subset of Multidimensional Point Pattern
scaletointerval Rescale Data to Lie Between Specified Limits
runifpointx Generate N Uniform Random Points in Any Dimensions
trim.rectangle Cut margins from rectangle
rpoisline Generate Poisson Random Line Process
BadGey Hybrid Geyer Point Process Model
varblock Estimate Variance of Summary Statistic by Subdivision
split.ppx Divide Multidimensional Point Pattern into Sub-patterns
as.rectangle Window Frame
square Square Window
beginner Print Introduction For Beginners
vertices Vertices of a Window
MultiHard The Multitype Hard Core Point Process Model
redwood California Redwoods Point Pattern (Ripley's Subset)
redwoodfull California Redwoods Point Pattern (Entire Dataset)
summary.ppp Summary of a Point Pattern Dataset
WindowOnly Extract Window of Spatial Object
closepairs Close Pairs of Points
residuals.ppm Residuals for Fitted Point Process Model
summary.im Summarizing a Pixel Image
berman.test Berman's Tests for Point Process Model
waka Trees in Waka national park
Pairwise Generic Pairwise Interaction model
bw.smoothppp Cross Validated Bandwidth Selection for Spatial Smoothing
areaGain Difference of Disc Areas
tess Create a Tessellation
rpoisppOnLines Generate Poisson Point Pattern on Line Segments
clarkevans Clark and Evans Aggregation Index
Extract.im Extract Subset of Image
run.simplepanel Run Point-and-Click Interface
boundingbox Bounding Box of a Window, Image, or Point Pattern
coef.ppm Coefficients of Fitted Point Process Model
methods.pp3 Methods for three-dimensional point patterns
rescale Convert dataset to another unit of length
reload.or.compute Compute Unless Previously Saved
residualspaper Data and Code From JRSS Discussion Paper on Residuals
Iest Estimate the I-function
rotate.ppp Rotate a Point Pattern
convexhull Convex Hull
rmhmodel.ppm Interpret Fitted Model for Metropolis-Hastings Simulation.
rcell Simulate Baddeley-Silverman Cell Process
vcov.kppm Variance-Covariance Matrix for a Fitted Cluster Point Process Model
runifpoint Generate N Uniform Random Points
summary.anylist Summary of a List of Things
G3est Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern
Smooth.ppp Spatial smoothing of observations at irregular points
reflect Reflect In Origin
rotate Rotate
rotate.im Rotate a Pixel Image
Kdot Multitype K Function (i-to-any)
simba Simulated data from a two-group experiment with replication within each group.
tile.areas Compute Areas of Tiles in a Tessellation
bw.frac Bandwidth Selection Based on Window Geometry
rshift.ppp Randomly Shift a Point Pattern
append.psp Combine Two Line Segment Patterns
cauchy.estK Fit the Neyman-Scott cluster process with Cauchy kernel
Fiksel The Fiksel Interaction
rlinegrid Generate grid of parallel lines with random displacement
Extract.solist Extract or Replace Subset of a List of Spatial Objest
DiggleGratton Diggle-Gratton model
bw.ppl Likelihood Cross Validation Bandwidth Selection for Kernel Density
timed Record the Computation Time
rpoispp Generate Poisson Point Pattern
Extract.listof Extract or Replace Subset of a List of Things
rpoislinetess Poisson Line Tessellation
as.fv Convert Data To Class fv
rpoispp3 Generate Poisson Point Pattern in Three Dimensions
Jcross Multitype J Function (i-to-j)
subfits Extract List of Individual Point Process Models
nbfires Point Patterns of New Brunswick Forest Fires
panel.contour Panel Plots using Colour Image or Contour Lines
LambertW Lambert's W Function
Kmulti Marked K-Function
scanpp Read Point Pattern From Data File
sharpen Data Sharpening of Point Pattern
Kscaled Locally Scaled K-function
Kest K-function
Lest L-function
symbolmap Graphics Symbol Map
delaunay.distance Distance on Delaunay Triangulation
affine.linnet Apply Geometrical Transformations to a Linear Network
unitname Name for Unit of Length
rescale.im Convert Pixel Image to Another Unit of Length
cauchy.estpcf Fit the Neyman-Scott cluster process with Cauchy kernel
clip.infline Intersect Infinite Straight Lines with a Window
rpoisppx Generate Poisson Point Pattern in Any Dimensions
npfun Dummy Function Returns Number of Points
density.ppp Kernel Smoothed Intensity of Point Pattern
Tstat Third order summary statistic
corners Corners of a rectangle
pcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-Type)
whist Weighted Histogram
diameter Diameter of an Object
plot.listof Plot a List of Things
scalardilate Apply Scalar Dilation
Extract.linnet Extract Subset of Linear Network
dummify Convert Data to Numeric Values by Constructing Dummy Variables
scanLRTS Likelihood Ratio Test Statistic for Scan Test
dirichlet.vertices Vertices of Dirichlet Tessellation
relrisk.ppm Parametric Estimate of Spatially-Varying Relative Risk
rsyst Simulate systematic random point pattern
runifpointOnLines Generate N Uniform Random Points On Line Segments
rmhmodel.list Define Point Process Model for Metropolis-Hastings Simulation.
PairPiece The Piecewise Constant Pairwise Interaction Point Process Model
Extract.leverage.ppm Extract Subset of Leverage Object
StraussHard The Strauss / Hard Core Point Process Model
shift.ppp Apply Vector Translation To Point Pattern
eval.fv Evaluate Expression Involving Functions
applynbd Apply Function to Every Neighbourhood in a Point Pattern
anova.slrm Analysis of Deviance for Spatial Logistic Regression Models
Strauss The Strauss Point Process Model
suffstat Sufficient Statistic of Point Process Model
as.data.frame.ppp Coerce Point Pattern to a Data Frame
rmhcontrol Set Control Parameters for Metropolis-Hastings Algorithm.
shift Apply Vector Translation
stratrand Stratified random point pattern
Extract.quad Subset of Quadrature Scheme
spatstat.options Internal Options in Spatstat Package
split.hyperframe Divide Hyperframe Into Subsets and Reassemble
border Border Region of a Window
crossdist.lpp Pairwise distances between two point patterns on a linear network
diameter.owin Diameter of a Window
superimpose.lpp Superimpose Several Point Patterns on Linear Network
Frame Extract or Change the Containing Rectangle of a Spatial Object
thomas.estK Fit the Thomas Point Process by Minimum Contrast
dirichlet Dirichlet Tessellation of Point Pattern
Gres Residual G Function
split.ppp Divide Point Pattern into Sub-patterns
clmfires Castilla-La Mancha Forest Fires
as.data.frame.im Convert Pixel Image to Data Frame
by.ppp Apply a Function to a Point Pattern Broken Down by Factor
rmpoint Generate N Random Multitype Points
textureplot Plot Image Using Texture Fill
envelope.pp3 Simulation Envelopes of Summary Function for 3D Point Pattern
rotate.psp Rotate a Line Segment Pattern
pp3 Three Dimensional Point Pattern
formula.fv Extract or Change the Plot Formula for a Function Value Table
bdist.pixels Distance to Boundary of Window
rmpoispp Generate Multitype Poisson Point Pattern
summary.listof Summary of a List of Things
as.owin Convert Data To Class owin
rmhstart Determine Initial State for Metropolis-Hastings Simulation.
summary.splitppp Summary of a Split Point Pattern
endpoints.psp Endpoints of Line Segment Pattern
sumouter Compute Quadratic Forms
compatible.fv Test Whether Function Objects Are Compatible
Saturated Saturated Pairwise Interaction model
Hest Spherical Contact Distribution Function
clickpoly Interactively Define a Polygon
eval.im Evaluate Expression Involving Pixel Images
bw.scott Scott's Rule for Bandwidth Selection for Kernel Density
shift.psp Apply Vector Translation To Line Segment Pattern
rthin Random Thinning
vcov.mppm Calculate Variance-Covariance Matrix for Fitted Multiple Point Process Model
idw Inverse-distance weighted smoothing of observations at irregular points
as.linim Convert to Pixel Image on Linear Network
hyytiala Scots pines and other trees at Hyytiala
as.data.frame.psp Coerce Line Segment Pattern to a Data Frame
edge.Ripley Ripley's Isotropic Edge Correction
texturemap Texture Map
affine.tess Apply Geometrical Transformation To Tessellation
solist List of Two-Dimensional Spatial Objects
finpines Pine saplings in Finland.
unique.ppp Extract Unique Points from a Spatial Point Pattern
Extract.msr Extract Subset of Signed or Vector Measure
letterR Window in Shape of Letter R
expand.owin Apply Expansion Rule
markcorrint Mark Correlation Integral
vargamma.estK Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
chicago Chicago Street Crime Data
runifpoint3 Generate N Uniform Random Points in Three Dimensions
cells Biological Cells Point Pattern
is.convex Test Whether a Window is Convex
HierStrauss The Hierarchical Strauss Point Process Model
yardstick Text, Arrow or Scale Bar in a Diagram
bw.stoyan Stoyan's Rule of Thumb for Bandwidth Selection
AreaInter The Area Interaction Point Process Model
will.expand Test Expansion Rule
marks.psp Marks of a Line Segment Pattern
concatxy Concatenate x,y Coordinate Vectors
Gcom Model Compensator of Nearest Neighbour Function
Linhom L-function
distmap Distance Map
nearestsegment Find Line Segment Nearest to Each Point
compareFit Residual Diagnostics for Multiple Fitted Models
Gmulti Marked Nearest Neighbour Distance Function
Emark Diagnostics for random marking
coef.slrm Coefficients of Fitted Spatial Logistic Regression Model
Lcross.inhom Inhomogeneous Cross Type L Function
coords Extract or Change Coordinates of a Spatial or Spatiotemporal Point Pattern
F3est Empty Space Function of a Three-Dimensional Point Pattern
LennardJones The Lennard-Jones Potential
waterstriders Waterstriders data. Three independent replications of a point pattern formed by insects.
Extract.owin Extract Subset of Window
contour.imlist Array of Contour Plots
MultiStraussHard The Multitype/Hard Core Strauss Point Process Model
summary.owin Summary of a Spatial Window
is.multitype.ppm Test Whether A Point Process Model is Multitype
kppm Fit Cluster or Cox Point Process Model
fitted.mppm Fitted Conditional Intensity for Multiple Point Process Model
Fest Estimate the Empty Space Function or its Hazard Rate
crossing.psp Crossing Points of Two Line Segment Patterns
Lcross Multitype L-function (cross-type)
intersect.owin Intersection, Union or Set Subtraction of Two Windows
Smooth.msr Smooth a Signed or Vector-Valued Measure
Smooth.fv Apply Smoothing to Function Values
linfun Function on a Linear Network
discpartarea Area of Part of Disc
unmark Remove Marks
zapsmall.im Rounding of Pixel Values
crossdist.psp Pairwise distances between two different line segment patterns
grow.rectangle Add margins to rectangle
Finhom Inhomogeneous Empty Space Function
rho2hat Smoothed Relative Density of Pairs of Covariate Values
Kmodel K Function or Pair Correlation Function of a Point Process Model
connected.ppp Connected components of a point pattern
scan.test Spatial Scan Test
fvnames Abbreviations for Groups of Columns in Function Value Table
rshift.psp Randomly Shift a Line Segment Pattern
kaplan.meier Kaplan-Meier Estimator using Histogram Data
Jest Estimate the J-function
distfun.lpp Distance Map on Linear Network
default.rmhcontrol Set Default Control Parameters for Metropolis-Hastings Algorithm.
affine.lpp Apply Geometrical Transformations to Point Pattern on a Linear Network
add.texture Fill Plot With Texture
rjitter Random Perturbation of a Point Pattern
is.marked Test Whether Marks Are Present
shapley Galaxies in the Shapley Supercluster
adaptive.density Intensity Estimate of Point Pattern Using Tessellation
rotate.owin Rotate a Window
logLik.slrm Loglikelihood of Spatial Logistic Regression
DiggleGatesStibbard Diggle-Gates-Stibbard Point Process Model
integral.im Integral of a Pixel Image
nndist.pp3 Nearest neighbour distances in three dimensions
selfcrossing.psp Crossing Points in a Line Segment Pattern
Poisson Poisson Point Process Model
layered Create List of Plotting Layers
stieltjes Compute Integral of Function Against Cumulative Distribution
latest.news Print News About Latest Version of Package
Window Extract or Change the Window of a Spatial Object
addvar Added Variable Plot for Point Process Model
amacrine Hughes' Amacrine Cell Data
nnorient Nearest Neighbour Orientation Distribution
Extract.psp Extract Subset of Line Segment Pattern
superimpose Superimpose Several Geometric Patterns
crossdist.pp3 Pairwise distances between two different three-dimensional point patterns
model.images Compute Images of Constructed Covariates
plot.ppp plot a Spatial Point Pattern
pool.quadrattest Pool Several Quadrat Tests
affine.im Apply Affine Transformation To Pixel Image
area.owin Area of a Window
lppm Fit Point Process Model to Point Pattern on Linear Network
affine.owin Apply Affine Transformation To Window
Extract.splitppp Extract or Replace Sub-Patterns
simplepanel Simple Point-and-Click Interface Panels
envelope.envelope Recompute Envelopes
iplot Point and Click Interface for Displaying Spatial Data
layout.boxes Generate a Row or Column Arrangement of Rectangles.
foo Foo is Not a Variable
anylist List of Objects
rknn Theoretical Distribution of Nearest Neighbour Distance
pairs.im Scatterplot Matrix for Pixel Images
anova.lppm ANOVA for Fitted Point Process Models on Linear Network
rlabel Random Re-Labelling of Point Pattern
anova.ppm ANOVA for Fitted Point Process Models
heather Diggle's Heather Data
deriv.fv Calculate Derivative of Function Values
eroded.areas Areas of Morphological Erosions
transect.im Pixel Values Along a Transect
print.ppp Print Brief Details of a Point Pattern Dataset
methods.objsurf Methods for Objective Function Surfaces
project2set Find Nearest Point in a Region
diameter.boxx Geometrical Calculations for Multi-Dimensional Box
as.hyperframe.ppx Extract coordinates and marks of multidimensional point pattern
rose Rose Diagram
eval.linim Evaluate Expression Involving Pixel Images on Linear Network
dilation Morphological Dilation
boxx Multi-Dimensional Box
closing Morphological Closing
as.polygonal Convert a Window to a Polygonal Window
Kmodel.ppm K Function or Pair Correlation Function of Gibbs Point Process model
as.solist Convert List of Two-Dimensional Spatial Objects
Math.im S3 Group Generic methods for images
Jdot Multitype J Function (i-to-any)
as.function.fv Convert Function Value Table to Function
domain Extract the Domain of any Spatial Object
im Create a Pixel Image Object
bramblecanes Hutchings' Bramble Canes data
is.empty Test Whether An Object Is Empty
OrdThresh Ord's Interaction model
K3est K-function of a Three-Dimensional Point Pattern
Kovesi Colour Sequences with Uniform Perceptual Contrast
lengths.psp Lengths of Line Segments
clarkevans.test Clark and Evans Test
is.multitype Test whether Object is Multitype
is.marked.ppm Test Whether A Point Process Model is Marked
convolve.im Convolution of Pixel Images
pairdist.ppx Pairwise Distances in Any Dimensions
owin.object Class owin
levelset Level Set of a Pixel Image
localpcf Local pair correlation function
as.box3 Convert Data to Three-Dimensional Box
thomas.estpcf Fit the Thomas Point Process by Minimum Contrast
bw.relrisk Cross Validated Bandwidth Selection for Relative Risk Estimation
markconnect Mark Connection Function
matchingdist Distance for a Point Pattern Matching
update.kppm Update a Fitted Cluster Point Process Model
as.hyperframe Convert Data to Hyperframe
Gfox Foxall's Distance Functions
edges2vees List Dihedral Triples in a Graph
areaLoss Difference of Disc Areas
union.quad Union of Data and Dummy Points
distcdf Distribution Function of Interpoint Distance
is.lpp Test Whether An Object Is A Point Pattern on a Linear Network
midpoints.psp Midpoints of Line Segment Pattern
Kres Residual K Function
vesicles Vesicles Data
matclust.estK Fit the Matern Cluster Point Process by Minimum Contrast
circumradius Circumradius of a Window
Ksector Sector K-function
as.ppp Convert Data To Class ppp
distfun Distance Map as a Function
maxnndist Compute Minimum or Maximum Nearest-Neighbour Distance
Concom The Connected Component Process Model
psp Create a Line Segment Pattern
markvario Mark Variogram
as.ppm Extract Fitted Point Process Model
beachcolours Create Colour Scheme for a Range of Numbers
pool.rat Pool Data from Several Ratio Objects
pairdist.default Pairwise distances
Extract.layered Extract or Replace Subset of a Layered Object
edge.Trans Translation Edge Correction
fasp.object Function Arrays for Spatial Patterns
circdensity Density Estimation for Circular Data
rMosaicSet Mosaic Random Set
Extract.fasp Extract Subset of Function Array
is.ppm Test Whether An Object Is A Fitted Point Process Model
pcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Type-i-To-Any-Type)
methods.boxx Methods for Multi-Dimensional Box
Smoothfun.ppp Smooth Interpolation of Marks as a Spatial Function
nearest.raster.point Find Pixel Nearest to a Given Point
centroid.owin Centroid of a window
longleaf Longleaf Pines Point Pattern
dirichlet.weights Compute Quadrature Weights Based on Dirichlet Tessellation
multiplicity.ppp Count Multiplicity of Duplicate Points
Softcore The Soft Core Point Process Model
Extract.lpp Extract Subset of Point Pattern on Linear Network
affine.ppp Apply Affine Transformation To Point Pattern
pairdist.psp Pairwise distances between line segments
Extract.tess Extract or Replace Subset of Tessellation
pppmatching.object Class of Point Matchings
lgcp.estpcf Fit a Log-Gaussian Cox Point Process by Minimum Contrast
diameter.box3 Geometrical Calculations for Three-Dimensional Box
ppp Create a Point Pattern
ppx Multidimensional Space-Time Point Pattern
clickbox Interactively Define a Rectangle
compatible Test Whether Objects Are Compatible
cut.ppp Classify Points in a Point Pattern
alltypes Calculate Summary Statistic for All Types in a Multitype Point Pattern
harmonise.fv Make Function Tables Compatible
markcorr Mark Correlation Function
Jinhom Inhomogeneous J-function
cdf.test Spatial Distribution Test for Point Pattern or Point Process Model
coef.mppm Coefficients of Point Process Model Fitted to Multiple Point Patterns
im.apply Apply Function Pixelwise to List of Images
intensity.ppp Empirical Intensity of Point Pattern
discretise Safely Convert Point Pattern Window to Binary Mask
angles.psp Orientation Angles of Line Segments
compatible.im Test Whether Pixel Images Are Compatible
as.im Convert to Pixel Image
methods.fii Methods for Fitted Interactions
nndensity.ppp Estimate Intensity of Point Pattern Using Nearest Neighbour Distances
linearpcfdot Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
mean.im Maximum, Minimum, Mean, Median, Range or Sum of Pixel Values in an Image
anemones Beadlet Anemones Data
harmonise.im Make Pixel Images Compatible
Extract.influence.ppm Extract Subset of Influence Object
edges2triangles List Triangles in a Graph
erosion Morphological Erosion
nndist Nearest neighbour distances
predict.mppm Prediction for Fitted Multiple Point Process Model
demohyper Demonstration Example of Hyperframe of Spatial Data
methods.rhohat Methods for Intensity Functions of Spatial Covariate
nncorr Nearest-Neighbour Correlation Indices of Marked Point Pattern
print.owin Print Brief Details of a Spatial Window
lansing Lansing Woods Point Pattern
copper Berman-Huntington points and lines data
model.matrix.slrm Extract Design Matrix from Spatial Logistic Regression Model
quadrat.test.splitppp Dispersion Test of CSR for Split Point Pattern Based on Quadrat Counts
as.interact Extract Interaction Structure
nnclean Nearest Neighbour Clutter Removal
Triplets The Triplet Point Process Model
cut.im Convert Pixel Image from Numeric to Factor
bdist.points Distance to Boundary of Window
data.ppm Extract Original Data from a Fitted Point Process Model
pairdist.ppp Pairwise distances
default.expand Default Expansion Rule for Simulation of Model
bei Tropical rain forest trees
crossdist Pairwise distances
intensity.quadratcount Intensity Estimates Using Quadrat Counts
ants Harkness-Isham ants' nests data
linnet Create a Linear Network
as.lpp Convert Data to a Point Pattern on a Linear Network
nndist.ppx Nearest Neighbour Distances in Any Dimensions
dmixpois Mixed Poisson Distribution
is.im Test Whether An Object Is A Pixel Image
nsegments Number of Line Segments in a Line Segment Pattern
nztrees New Zealand Trees Point Pattern
quantile.ewcdf Quantiles of Weighted Empirical Cumulative Distribution Function
methods.ppx Methods for Multidimensional Space-Time Point Patterns
distmap.owin Distance Map of Window
pairorient Point Pair Orientation Distribution
flipxy Exchange X and Y Coordinates
rGaussPoisson Simulate Gauss-Poisson Process
crossdist.ppp Pairwise distances between two different point patterns
as.matrix.owin Convert Pixel Image to Matrix
paracou Kimboto trees at Paracou, French Guiana
density.splitppp Kernel Smoothed Intensity of Split Point Pattern
chorley Chorley-Ribble Cancer Data
clickppp Interactively Add Points
pixellate.owin Convert Window to Pixel Image
bw.diggle Cross Validated Bandwidth Selection for Kernel Density
fitted.slrm Fitted Probabilities for Spatial Logistic Regression
fryplot Fry Plot of Point Pattern
rat Ratio object
gridcentres Rectangular grid of points
as.layered Convert Data To Layered Object
colourtools Convert and Compare Colours in Different Formats
collapse.fv Collapse Several Function Tables into One
box3 Three-Dimensional Box
incircle Find Largest Circle Inside Window
diagnose.ppm Diagnostic Plots for Fitted Point Process Model
fitted.ppm Fitted Conditional Intensity for Point Process Model
layerplotargs Extract or Replace the Plot Arguments of a Layered Object
linim Create Pixel Image on Linear Network
plot.cdftest Plot a Spatial Distribution Test
fardist Farthest Distance to Boundary of Window
relrisk.ppp Nonparametric Estimate of Spatially-Varying Relative Risk
localKinhom Inhomogeneous Neighbourhood Density Function
overlap.owin Compute Area of Overlap
linearpcfcross Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
pool.fasp Pool Data from Several Function Arrays
identify.psp Identify Segments in a Line Segment Pattern
discs Union of Discs
as.tess Convert Data To Tessellation
osteo Osteocyte Lacunae Data: Replicated Three-Dimensional Point Patterns
closepairs.pp3 Close Pairs of Points in 3 Dimensions
msr Signed or Vector-Valued Measure
bind.fv Combine Function Value Tables
funxy Spatial Function Class
plot.pp3 Plot a three-dimensional point pattern
rescue.rectangle Convert Window Back To Rectangle
profilepl Profile Maximum Pseudolikelihood or AIC
nnfun Nearest Neighbour Index Map as a Function
bdist.tiles Distance to Boundary of Window
opening Morphological Opening
quadrat.test Dispersion Test for Spatial Point Pattern Based on Quadrat Counts
fitin.ppm Extract the Interaction from a Fitted Point Process Model
gorillas Gorilla Nesting Sites
plot.ppm plot a Fitted Point Process Model
linearmarkconnect Mark Connection Function for Multitype Point Pattern on Linear Network
rQuasi Generate Quasirandom Point Pattern in Given Window
hopskel Hopkins-Skellam Test
crossdist.ppx Pairwise Distances Between Two Different Multi-Dimensional Point Patterns
objsurf Objective Function Surface
diameter.linnet Circumradius and Diameter of a Linear Network
increment.fv Increments of a Function
rStrauss Perfect Simulation of the Strauss Process
plot.leverage.ppm Plot Leverage Function
hextess Hexagonal Grid or Tessellation
plot.colourmap Plot a Colour Map
dclf.test Diggle-Cressie-Loosmore-Ford and Maximum Absolute Deviation Tests
gauss.hermite Gauss-Hermite Quadrature Approximation to Expectation for Normal Distribution
deltametric Delta Metric
rgbim Create Colour-Valued Pixel Image
im.object Class of Images
pixelquad Quadrature Scheme Based on Pixel Grid
ppm.object Class of Fitted Point Process Models
intensity.lpp Empirical Intensity of Point Pattern on Linear Network
simulate.ppm Simulate a Fitted Gibbs Point Process Model
linearKdot.inhom Inhomogeneous multitype K Function (Dot-type) for Linear Point Pattern
model.frame.ppm Extract the Variables in a Point Process Model
distmap.ppp Distance Map of Point Pattern
dilated.areas Areas of Morphological Dilations
eval.fasp Evaluate Expression Involving Function Arrays
summary.psp Summary of a Line Segment Pattern Dataset
disc Circular Window
linearpcfinhom Inhomogeneous Linear Pair Correlation Function
inforder.family Infinite Order Interaction Family
invoke.symbolmap Plot Data Using Graphics Symbol Map
methods.box3 Methods for Three-Dimensional Box
pairsat.family Saturated Pairwise Interaction Point Process Family
is.multitype.ppp Test Whether A Point Pattern is Multitype
murchison Murchison gold deposits
japanesepines Japanese Pines Point Pattern
plot.linim Plot Pixel Image on Linear Network
linearK Linear K Function
inside.owin Test Whether Points Are Inside A Window
nncross.pp3 Nearest Neighbours Between Two Patterns in 3D
demopat Artificial Data Point Pattern
ponderosa Ponderosa Pine Tree Point Pattern
rDiggleGratton Perfect Simulation of the Diggle-Gratton Process
hybrid.family Hybrid Interaction Family
intensity.ppm Intensity of Fitted Point Process Model
infline Infinite Straight Lines
plot.kppm Plot a fitted cluster point process
eem Exponential Energy Marks
summary.quad Summarizing a Quadrature Scheme
lpp Create Point Pattern on Linear Network
rCauchy Simulate Neyman-Scott Point Process with Cauchy cluster kernel
plot.quadratcount Plot Quadrat Counts
influence.ppm Influence Measure for Spatial Point Process Model
intersect.tess Intersection of Two Tessellations
rSSI Simulate Simple Sequential Inhibition
linearKinhom Inhomogeneous Linear K Function
rPoissonCluster Simulate Poisson Cluster Process
is.rectangle Determine Type of Window
ippm Fit Point Process Model Involving Irregular Trend Parameters
update.rmhcontrol Update Control Parameters of Metropolis-Hastings Algorithm
ewcdf Weighted Empirical Cumulative Distribution Function
formula.ppm Model Formulae for Gibbs Point Process Models
methods.kppm Methods for Cluster Point Process Models
psstA Pseudoscore Diagnostic For Fitted Model against Area-Interaction Alternative
methods.slrm Methods for Spatial Logistic Regression Models
rMosaicField Mosaic Random Field
localK Neighbourhood density function
is.ppp Test Whether An Object Is A Point Pattern
is.owin Test Whether An Object Is A Window
methods.rho2hat Methods for Intensity Functions of Two Spatial Covariates
lohboot Bootstrap Confidence Bands for Summary Function
logLik.ppm Log Likelihood and AIC for Point Process Model
methods.layered Methods for Layered Objects
nndist.lpp Nearest neighbour distances on a linear network
padimage Pad the Border of a Pixel Image
vcov.slrm Variance-Covariance Matrix for a Fitted Spatial Logistic Regression
with.hyperframe Evaluate an Expression in Each Row of a Hyperframe
pairwise.family Pairwise Interaction Process Family
gordon People in Gordon Square
perspPoints Draw Points or Lines on a Surface Viewed in Perspective
rMatClust Simulate Matern Cluster Process
npoints Number of Points in a Point Pattern
hierpair.family Hierarchical Pairwise Interaction Process Family
range.fv Range of Function Values
Extract.anylist Extract or Replace Subset of a List of Things
plot.layered Layered Plot
pcfcross Multitype pair correlation function (cross-type)
model.depends Identify Covariates Involved in each Model Term
nnmap K-th Nearest Point Map
plot.msr Plot a Signed or Vector-Valued Measure
mucosa Cells in Gastric Mucosa
nncross.lpp Nearest Neighbours on a Linear Network
linearpcf Linear Pair Correlation Function
nnwhich.ppx Nearest Neighbours in Any Dimensions
Gdot Multitype Nearest Neighbour Distance Function (i-to-any)
nnwhich.pp3 Nearest neighbours in three dimensions
pairdist.pp3 Pairwise distances in Three Dimensions
nnwhich.lpp Identify Nearest Neighbours on a Linear Network
pixellate.ppp Convert Point Pattern to Pixel Image
Hardcore The Hard Core Point Process Model
identify.ppp Identify Points in a Point Pattern
linearpcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
pixellate.psp Convert Line Segment Pattern to Pixel Image
logLik.mppm Log Likelihood for Poisson Point Process Model
imcov Spatial Covariance of a Pixel Image
persp.im Perspective Plot of Pixel Image
is.subset.owin Determine Whether One Window is Contained In Another
pixellate Convert Spatial Object to Pixel Image
methods.lpp Methods for Point Patterns on a Linear Network
plot.fv Plot Function Values
pcf.ppp Pair Correlation Function of Point Pattern
plot.quad Plot a Spatial Quadrature Scheme
plot.psp plot a Spatial Line Segment Pattern
plot.anylist Plot a List of Things
plot.yardstick Plot a Yardstick or Scale Bar
ord.family Ord Interaction Process Family
quad.object Class of Quadrature Schemes
pppdist Distance Between Two Point Patterns
nnfun.lpp Nearest Neighbour Map on Linear Network
pool.envelope Pool Data from Several Envelopes
psp.object Class of Line Segment Patterns
pcf Pair Correlation Function
Kcross.inhom Inhomogeneous Cross K Function
plot.solist Plot a List of Spatial Objects
MultiStrauss The Multitype Strauss Point Process Model
Replace.im Reset Values in Subset of Image
quasirandom Quasirandom Patterns
project.ppm Force Point Process Model to be Valid
plot.scan.test Plot Result of Scan Test
quadrat.test.mppm Chi-Squared Test for Multiple Point Process Model Based on Quadrat Counts
pixelcentres Extract Pixel Centres as Point Pattern
rMaternI Simulate Matern Model I
pool Pool Data
dummy.ppm Extract Dummy Points Used to Fit a Point Process Model
psst Pseudoscore Diagnostic For Fitted Model against General Alternative
plot.lpp Plot Point Pattern on Linear Network
pairdist Pairwise distances
edges Extract Boundary Edges of a Window.
ellipse Elliptical Window.
allstats Calculate four standard summary functions of a point pattern.
plot.owin Plot a Spatial Window
as.matrix.im Convert Pixel Image to Matrix or Array
exactMPLEstrauss Exact Maximum Pseudolikelihood Estimate for Stationary Strauss Process
rMaternII Simulate Matern Model II
plot.lppm Plot a Fitted Point Process Model on a Linear Network
pcfdot Multitype pair correlation function (i-to-any)
perimeter Perimeter Length of Window
print.quad Print a Quadrature Scheme
pointsOnLines Place Points Evenly Along Specified Lines
plot.textstring Plot a Text String
gridweights Compute Quadrature Weights Based on Grid Counts
pyramidal Pyramidal Neurons in Cingulate Cortex
project2segment Move Point To Nearest Line
predict.kppm Prediction from a Fitted Cluster Point Process Model
quad.ppm Extract Quadrature Scheme Used to Fit a Point Process Model
print.psp Print Brief Details of a Line Segment Pattern Dataset
quadscheme.logi Generate a Logistic Regression Quadrature Scheme from a Point Pattern
predict.ppm Prediction from a Fitted Point Process Model
rLGCP Simulate Log-Gaussian Cox Process
as.mask Pixel Image Approximation of a Window
blur Apply Gaussian Blur to a Pixel Image
by.im Apply Function to Image Broken Down by Factor
quadratcount Quadrat counting for a point pattern
harmonise Make Objects Compatible
interp.im Interpolate a Pixel Image
clickjoin Interactively join vertices on a plot
convexhull.xy Convex Hull of Points
km.rs Kaplan-Meier and Reduced Sample Estimator using Histograms
linearKcross Multitype K Function (Cross-type) for Linear Point Pattern
rDGS Perfect Simulation of the Diggle-Gates-Stibbard Process
rThomas Simulate Thomas Process
plot.quadrattest Display the result of a quadrat counting test.
linearKcross.inhom Inhomogeneous multitype K Function (Cross-type) for Linear Point Pattern
fv Create a Function Value Table
fv.object Function Value Table
leverage.ppm Leverage Measure for Spatial Point Process Model
linearpcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
istat Point and Click Interface for Exploratory Analysis of Point Pattern
is.marked.ppp Test Whether A Point Pattern is Marked
lurking Lurking variable plot
marktable Tabulate Marks in Neighbourhood of Every Point in a Point Pattern
methods.funxy Methods for Spatial Functions
methods.linfun Methods for Functions on Linear Network
marks Marks of a Point Pattern
moribund Outdated Functions
plot.mppm plot a Fitted Multiple Point Process Model
methods.units Methods for Units
plot.texturemap Plot a Texture Map
linearKdot Multitype K Function (Dot-type) for Linear Point Pattern
owin Create a Window
quantile.im Sample Quantiles of Pixel Image
periodify Make Periodic Copies of a Spatial Pattern
plot.hyperframe Plot Entries in a Hyperframe
pcfinhom Inhomogeneous Pair Correlation Function
plot.symbolmap Plot a Graphics Symbol Map
plot.tess Plot a tessellation
quadrats Divide Region into Quadrats
rHardcore Perfect Simulation of the Hardcore Process
psstG Pseudoscore Diagnostic For Fitted Model against Saturation Alternative
quadscheme Generate a Quadrature Scheme from a Point Pattern
humberside Humberside Data on Childhood Leukaemia and Lymphoma
reduced.sample Reduced Sample Estimator using Histogram Data
ripras Estimate window from points alone
rotmean Rotational Average of a Pixel Image
swedishpines Swedish Pines Point Pattern
Gcross Multitype Nearest Neighbour Distance Function (i-to-j)
Gest Nearest Neighbour Distance Function G
vargamma.estpcf Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
cbind.hyperframe Combine Hyperframes by Rows or by Columns
cdf.test.mppm Spatial Distribution Test for Multiple Point Process Model
bounding.box.xy Convex Hull of Points
complement.owin Take Complement of a Window
crossdist.default Pairwise distances between two different sets of points
dfbetas.ppm Parameter influence measure
distmap.psp Distance Map of Line Segment Pattern
envelope.lpp Envelope for Point Patterns on Linear Network
integral.msr Integral of a Measure
lgcp.estK Fit a Log-Gaussian Cox Point Process by Minimum Contrast
model.matrix.ppm Extract Design Matrix from Point Process Model
methods.lppm Methods for Fitted Point Process Models on a Linear Network
methods.linnet Methods for Linear Networks
parres Partial Residuals for Point Process Model
plot.onearrow Plot an Arrow
plot.splitppp Plot a List of Point Patterns
pppmatching Create a Point Matching
quadratresample Resample a Point Pattern by Resampling Quadrats
rStraussHard Perfect Simulation of the Strauss-Hardcore Process
reach Interaction Distance of a Point Process
rmh Simulate point patterns using the Metropolis-Hastings algorithm.
spruces Spruces Point Pattern
unnormdensity Weighted kernel smoother
stienen Stienen Diagram
Ginhom Inhomogeneous Nearest Neighbour Function
Extract.ppp Extract or Replace Subset of Point Pattern
Kdot.inhom Inhomogeneous Multitype K Dot Function
Kcross Multitype K Function (Cross-type)
Kmeasure Reduced Second Moment Measure
bdspots Breakdown Spots in Microelectronic Materials
contour.im Contour plot of pixel image
dclf.progress Progress Plot of Test of Spatial Pattern
delaunay Delaunay Triangulation of Point Pattern
flu Influenza Virus Proteins
hyperframe Hyper Data Frame
improve.kppm Improve Intensity Estimate of Fitted Cluster Point Process Model
is.stationary Recognise Stationary and Poisson Point Process Models
lut Lookup Tables
markstat Summarise Marks in Every Neighbourhood in a Point Pattern
mppm Fit Point Process Model to Several Point Patterns
lineardisc Compute Disc of Given Radius in Linear Network
nnwhich Nearest neighbour
pcfmulti Marked pair correlation function
plot.fasp Plot a Function Array
plot.plotppm Plot a plotppm Object Created by plot.ppm
rcellnumber Generate Random Numbers of Points for Cell Process
rstrat Simulate Stratified Random Point Pattern
setcov Set Covariance of a Window
simplenet Simple Example of Linear Network
simdat Simulated Point Pattern
vcov.ppm Variance-Covariance Matrix for a Fitted Point Process Model
Ldot.inhom Inhomogeneous Multitype L Dot Function
as.mask.psp Convert Line Segment Pattern to Binary Pixel Mask
compatible.fasp Test Whether Function Arrays Are Compatible
default.dummy Generate a Default Pattern of Dummy Points
duplicated.ppp Determine Duplicated Points in a Spatial Point Pattern
effectfun Compute Fitted Effect of a Spatial Covariate in a Point Process Model
hamster Aherne's hamster tumour data
envelope Simulation Envelopes of Summary Function
harmonic Basis for Harmonic Functions
intensity Intensity of a Dataset or a Model
is.hybrid Test Whether Object is a Hybrid
ganglia Beta Ganglion Cells in Cat Retina, Old Version
matclust.estpcf Fit the Matern Cluster Point Process by Minimum Contrast Using Pair Correlation
mincontrast Method of Minimum Contrast
linearmarkequal Mark Connection Function for Multitype Point Pattern on Linear Network
nncross Nearest Neighbours Between Two Patterns
nndist.psp Nearest neighbour distances between line segments
nnmark Mark of Nearest Neighbour
plot.envelope Plot a Simulation Envelope
plot.im Plot a Pixel Image
ppm.ppp Fit Point Process Model to Point Pattern Data
print.ppm Print a Fitted Point Process Model
rVarGamma Simulate Neyman-Scott Point Process with Variance Gamma cluster kernel
predict.lppm Predict Point Process Model on Linear Network
plot.imlist Plot a List of Images
simulate.kppm Simulate a Fitted Cluster Point Process Model
spokes Spokes pattern of dummy points
triplet.family Triplet Interaction Family
urkiola Urkiola Woods Point Pattern
Kinhom Inhomogeneous K-function
Smooth Spatial smoothing of data
SatPiece Piecewise Constant Saturated Pairwise Interaction Point Process Model
Ord Generic Ord Interaction model
affine.psp Apply Affine Transformation To Line Segment Pattern
as.psp Convert Data To Class psp
betacells Beta Ganglion Cells in Cat Retina
bronzefilter Bronze gradient filter data
chop.tess Subdivide a Window or Tessellation using a Set of Lines
commonGrid Determine A Common Spatial Domain And Pixel Resolution
colourmap Colour Lookup Tables
connected Connected components
clusterset Allard-Fraley Estimator of Cluster Feature
density.psp Kernel Smoothing of Line Segment Pattern
hist.im Histogram of Pixel Values in an Image
interp.colourmap Interpolate smoothly between specified colours
miplot Morisita Index Plot
is.dppm Recognise Fitted Determinantal Point Process Models
pairdist.lpp Pairwise shortest-path distances between points on a linear network
pcf.fasp Pair Correlation Function obtained from array of K functions
pcf.fv Pair Correlation Function obtained from K Function
pcf3est Pair Correlation Function of a Three-Dimensional Point Pattern
plot.bermantest Plot Result of Berman Test
plot.influence.ppm Plot Influence Measure
plot.linnet Plot a linear network
predict.slrm Predicted or Fitted Values from Spatial Logistic Regression
print.im Print Brief Details of an Image
progressreport Print Progress Reports
rNeymanScott Simulate Neyman-Scott Process
plot.slrm Plot a Fitted Spatial Logistic Regression
ppm Fit Point Process Model to Data
ppp.object Class of Point Patterns
qqplot.ppm Q-Q Plot of Residuals from Fitted Point Process Model
raster.x Cartesian Coordinates for a Pixel Raster
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Nickname Do The Maths
Date 2014-12-31
License GPL (>= 2)
URL http://www.spatstat.org
LazyData true
NeedsCompilation yes
ByteCompile true
Packaged 2014-12-31 04:28:53 UTC; adrian
Repository CRAN
Date/Publication 2014-12-31 10:17:05

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