spatstat v1.42-1

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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
density.splitppp Kernel Smoothed Intensity of Split Point Pattern
bdist.tiles Distance to Boundary of Window
bdist.points Distance to Boundary of Window
demopat Artificial Data Point Pattern
Extract.listof Extract or Replace Subset of a List of Things
Extract.quad Subset of Quadrature Scheme
Jdot Multitype J Function (i-to-any)
Fiksel The Fiksel Interaction
AreaInter The Area Interaction Point Process Model
Kmodel K Function or Pair Correlation Function of a Point Process Model
Extract.fv Extract or Replace Subset of Function Values
Extract.splitppp Extract or Replace Sub-Patterns
BadGey Hybrid Geyer Point Process Model
Extract.psp Extract Subset of Line Segment Pattern
Gcom Model Compensator of Nearest Neighbour Function
Ginhom Inhomogeneous Nearest Neighbour Function
Extract.solist Extract or Replace Subset of a List of Spatial Objest
Extract.leverage.ppm Extract Subset of Leverage Object
Iest Estimate the I-function
G3est Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern
Gcross Multitype Nearest Neighbour Distance Function (i-to-j)
Extract.fasp Extract Subset of Function Array
Concom The Connected Component Process Model
F3est Empty Space Function of a Three-Dimensional Point Pattern
Extract.ppp Extract or Replace Subset of Point Pattern
Extract.im Extract Subset of Image
Fest Estimate the Empty Space Function or its Hazard Rate
Extract.msr Extract Subset of Signed or Vector Measure
Extract.hyperframe Extract or Replace Subset of Hyperframe
HierHard The Hierarchical Hard Core Point Process Model
HierStrauss The Hierarchical Strauss Point Process Model
Jmulti Marked J Function
Gres Residual G Function
Hardcore The Hard Core Point Process Model
Finhom Inhomogeneous Empty Space Function
DiggleGatesStibbard Diggle-Gates-Stibbard Point Process Model
Frame Extract or Change the Containing Rectangle of a Spatial Object
Extract.influence.ppm Extract Subset of Influence Object
Jcross Multitype J Function (i-to-j)
Kdot Multitype K Function (i-to-any)
Jest Estimate the J-function
Gdot Multitype Nearest Neighbour Distance Function (i-to-any)
Extract.anylist Extract or Replace Subset of a List of Things
Gmulti Marked Nearest Neighbour Distance Function
DiggleGratton Diggle-Gratton model
Kmark Mark-Weighted K Function
Kcom Model Compensator of K Function
Gfox Foxall's Distance Functions
Kest.fft K-function using FFT
Geyer Geyer's Saturation Point Process Model
Kinhom Inhomogeneous K-function
Gest Nearest Neighbour Distance Function G
Extract.owin Extract Subset of Window
Kmeasure Reduced Second Moment Measure
Kmodel.ppm K Function or Pair Correlation Function of Gibbs Point Process model
Hybrid Hybrid Interaction Point Process Model
Extract.layered Extract or Replace Subset of a Layered Object
K3est K-function of a Three-Dimensional Point Pattern
Emark Diagnostics for random marking
Extract.tess Extract or Replace Subset of Tessellation
Jinhom Inhomogeneous J-function
Kcross Multitype K Function (Cross-type)
Kmodel.kppm K Function or Pair Correlation Function of Cluster Model or Cox model
Kcross.inhom Inhomogeneous Cross K Function
Kest K-function
HierStraussHard The Hierarchical Strauss Hard Core Point Process Model
Hest Spherical Contact Distribution Function
Kmulti.inhom Inhomogeneous Marked K-Function
Extract.linnet Extract Subset of Linear Network
Extract.ppx Extract Subset of Multidimensional Point Pattern
Extract.lpp Extract Subset of Point Pattern on Linear Network
Kdot.inhom Inhomogeneous Multitype K Dot Function
plot.ppm plot a Fitted Point Process Model
pool.fasp Pool Data from Several Function Arrays
predict.kppm Prediction from a Fitted Cluster Point Process Model
project2set Find Nearest Point in a Region
relrisk.ppm Parametric Estimate of Spatially-Varying Relative Risk
pixellate.owin Convert Window to Pixel Image
plot.lpp Plot Point Pattern on Linear Network
plot.solist Plot a List of Spatial Objects
plot.linim Plot Pixel Image on Linear Network
pool.envelope Pool Data from Several Envelopes
ppp Create a Point Pattern
rMatClust Simulate Matern Cluster Process
plot.pp3 Plot a Three-Dimensional Point Pattern
rshift.splitppp Randomly Shift a List of Point Patterns
reload.or.compute Compute Unless Previously Saved
plot.tess Plot a tessellation
quadscheme.logi Generate a Logistic Regression Quadrature Scheme from a Point Pattern
rStrauss Perfect Simulation of the Strauss Process
quantess Quantile Tessellation
pool.anylist Pool Data from a List of Objects
rknn Theoretical Distribution of Nearest Neighbour Distance
rmhmodel.default Build Point Process Model for Metropolis-Hastings Simulation.
quad.ppm Extract Quadrature Scheme Used to Fit a Point Process Model
plot.quad Plot a Spatial Quadrature Scheme
plot.kppm Plot a fitted cluster point process
rPoissonCluster Simulate Poisson Cluster Process
rcell Simulate Baddeley-Silverman Cell Process
rjitter Random Perturbation of a Point Pattern
rotmean Rotational Average of a Pixel Image
plot.plotppm Plot a plotppm Object Created by plot.ppm
plot.fasp Plot a Function Array
print.psp Print Brief Details of a Line Segment Pattern Dataset
predict.lppm Predict Point Process Model on Linear Network
stratrand Stratified random point pattern
plot.slrm Plot a Fitted Spatial Logistic Regression
quadscheme Generate a Quadrature Scheme from a Point Pattern
predict.mppm Prediction for Fitted Multiple Point Process Model
plot.ppp plot a Spatial Point Pattern
psst Pseudoscore Diagnostic For Fitted Model against General Alternative
pointsOnLines Place Points Evenly Along Specified Lines
qqplot.ppm Q-Q Plot of Residuals from Fitted Point Process Model
plot.quadratcount Plot Quadrat Counts
summary.ppm Summarizing a Fitted Point Process Model
selfcut.psp Cut Line Segments Where They Intersect
rmhexpand Specify Simulation Window or Expansion Rule
rmh.ppm Simulate from a Fitted Point Process Model
ponderosa Ponderosa Pine Tree Point Pattern
rCauchy Simulate Neyman-Scott Point Process with Cauchy cluster kernel
spokes Spokes pattern of dummy points
ripras Estimate window from points alone
rshift.psp Randomly Shift a Line Segment Pattern
rnoise Random Pixel Noise
simplepanel Simple Point-and-Click Interface Panels
rshift Random Shift
reflect Reflect In Origin
round.ppp Apply Numerical Rounding to Spatial Coordinates
rGaussPoisson Simulate Gauss-Poisson Process
rgbim Create Colour-Valued Pixel Image
shift Apply Vector Translation
predict.ppm Prediction from a Fitted Point Process Model
plot.leverage.ppm Plot Leverage Function
rpoisline Generate Poisson Random Line Process
quadrat.test Dispersion Test for Spatial Point Pattern Based on Quadrat Counts
thomas.estpcf Fit the Thomas Point Process by Minimum Contrast
rescale.psp Convert Line Segment Pattern to Another Unit of Length
plot.symbolmap Plot a Graphics Symbol Map
quadratresample Resample a Point Pattern by Resampling Quadrats
update.symbolmap Update a Graphics Symbol Map.
plot.cdftest Plot a Spatial Distribution Test
print.im Print Brief Details of an Image
rescale.im Convert Pixel Image to Another Unit of Length
plot.hyperframe Plot Entries in a Hyperframe
spruces Spruces Point Pattern
perspPoints Draw Points or Lines on a Surface Viewed in Perspective
scaletointerval Rescale Data to Lie Between Specified Limits
rounding Detect Numerical Rounding
rDiggleGratton Perfect Simulation of the Diggle-Gratton Process
plot.texturemap Plot a Texture Map
shift.im Apply Vector Translation To Pixel Image
rlabel Random Re-Labelling of Point Pattern
quadrat.test.splitppp Dispersion Test of CSR for Split Point Pattern Based on Quadrat Counts
plot.anylist Plot a List of Things
runiflpp Uniform Random Points on a Linear Network
plot.splitppp Plot a List of Point Patterns
project.ppm Force Point Process Model to be Valid
rmh.default Simulate Point Process Models using the Metropolis-Hastings Algorithm.
runifpoint Generate N Uniform Random Points
summary.anylist Summary of a List of Things
residualspaper Data and Code From JRSS Discussion Paper on Residuals
waterstriders Waterstriders data. Three independent replications of a point pattern formed by insects.
plot.linnet Plot a linear network
residuals.mppm Residuals for Point Process Model Fitted to Multiple Point Patterns
plot.textstring Plot a Text String
print.owin Print Brief Details of a Spatial Window
pool.quadrattest Pool Several Quadrat Tests
rose Rose Diagram
rmhcontrol Set Control Parameters for Metropolis-Hastings Algorithm.
quad.object Class of Quadrature Schemes
rshift.ppp Randomly Shift a Point Pattern
vcov.mppm Calculate Variance-Covariance Matrix for Fitted Multiple Point Process Model
plot.layered Layered Plot
simba Simulated data from a two-group experiment with replication within each group.
pppdist Distance Between Two Point Patterns
plot.imlist Plot a List of Images
project2segment Move Point To Nearest Line
rmhmodel.ppm Interpret Fitted Model for Metropolis-Hastings Simulation.
sharpen Data Sharpening of Point Pattern
quantile.ewcdf Quantiles of Weighted Empirical Cumulative Distribution Function
vcov.ppm Variance-Covariance Matrix for a Fitted Point Process Model
plot.yardstick Plot a Yardstick or Scale Bar
shift.ppp Apply Vector Translation To Point Pattern
rescale Convert dataset to another unit of length
plot.mppm plot a Fitted Multiple Point Process Model
urkiola Urkiola Woods Point Pattern
predict.slrm Predicted or Fitted Values from Spatial Logistic Regression
selfcrossing.psp Crossing Points in a Line Segment Pattern
superimpose.lpp Superimpose Several Point Patterns on Linear Network
tilenames Names of Tiles in a Tessellation
unitname Name for Unit of Length
ppp.object Class of Point Patterns
pyramidal Pyramidal Neurons in Cingulate Cortex
rotate.im Rotate a Pixel Image
pool.rat Pool Data from Several Ratio Objects
sidelengths.owin Side Lengths of Enclosing Rectangle of a Window
segregation.test Test of Spatial Segregation of Types
rescue.rectangle Convert Window Back To Rectangle
sessionLibs Print Names and Version Numbers of Libraries Loaded
rmpoint Generate N Random Multitype Points
print.quad Print a Quadrature Scheme
suffstat Sufficient Statistic of Point Process Model
pppmatching Create a Point Matching
roc Receiver Operating Characteristic
simplenet Simple Example of Linear Network
rpoispp3 Generate Poisson Point Pattern in Three Dimensions
plot.onearrow Plot an Arrow
psp.object Class of Line Segment Patterns
rpoispp Generate Poisson Point Pattern
waka Trees in Waka national park
rstrat Simulate Stratified Random Point Pattern
studpermu.test Studentised Permutation Test
pixellate Convert Spatial Object to Pixel Image
plot.lppm Plot a Fitted Point Process Model on a Linear Network
plot.im Plot a Pixel Image
plot.colourmap Plot a Colour Map
rThomas Simulate Thomas Process
plot.psp plot a Spatial Line Segment Pattern
relrisk.ppp Nonparametric Estimate of Spatially-Varying Relative Risk
spatstat-deprecated Deprecated spatstat functions
scanLRTS Likelihood Ratio Test Statistic for Scan Test
rLGCP Simulate Log-Gaussian Cox Process
plot.bermantest Plot Result of Berman Test
relevel.im Reorder Levels of a Factor-Valued Image or Pattern
ppm.ppp Fit Point Process Model to Point Pattern Data
spatstat-internal Internal spatstat functions
treebranchlabels Label Vertices of a Tree by Branch Membership
psstG Pseudoscore Diagnostic For Fitted Model against Saturation Alternative
runifdisc Generate N Uniform Random Points in a Disc
varblock Estimate Variance of Summary Statistic by Subdivision
plot.influence.ppm Plot Influence Measure
rMaternII Simulate Matern Model II
rmh Simulate point patterns using the Metropolis-Hastings algorithm.
solutionset Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True
rDGS Perfect Simulation of the Diggle-Gates-Stibbard Process
split.hyperframe Divide Hyperframe Into Subsets and Reassemble
subfits Extract List of Individual Point Process Models
plot.quadrattest Display the result of a quadrat counting test.
scanpp Read Point Pattern From Data File
summary.psp Summary of a Line Segment Pattern Dataset
rNeymanScott Simulate Neyman-Scott Process
triplet.family Triplet Interaction Family
unique.ppp Extract Unique Points from a Spatial Point Pattern
rMosaicSet Mosaic Random Set
volume Volume of an Object
sporophores Sporophores Data
rpoint Generate N Random Points
runifpointOnLines Generate N Uniform Random Points On Line Segments
simdat Simulated Point Pattern
shift.psp Apply Vector Translation To Line Segment Pattern
rotate.owin Rotate a Window
profilepl Profile Maximum Pseudolikelihood or AIC
redwood California Redwoods Point Pattern (Ripley's Subset)
rHardcore Perfect Simulation of the Hardcore Process
vcov.slrm Variance-Covariance Matrix for a Fitted Spatial Logistic Regression
split.im Divide Image Into Sub-images
solapply Apply a Function Over a List and Obtain a List of Objects
rescale.ppp Convert Point Pattern to Another Unit of Length
rmpoispp Generate Multitype Poisson Point Pattern
stienen Stienen Diagram
vargamma.estK Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
raster.x Cartesian Coordinates for a Pixel Raster
with.msr Evaluate Expression Involving Components of a Measure
rsyst Simulate systematic random point pattern
split.ppx Divide Multidimensional Point Pattern into Sub-patterns
plot.fv Plot Function Values
rSSI Simulate Simple Sequential Inhibition
quasirandom Quasirandom Patterns
pppmatching.object Class of Point Matchings
pool.fv Pool Several Functions
summary.listof Summary of a List of Things
spatstat-package The Spatstat Package
plot.owin Plot a Spatial Window
scalardilate Apply Scalar Dilation
summary.kppm Summarizing a Fitted Cox or Cluster Point Process Model
pixellate.ppp Convert Point Pattern to Pixel Image
progressreport Print Progress Reports
summary.im Summarizing a Pixel Image
residuals.ppm Residuals for Fitted Point Process Model
spiders Spider Webs on Mortar Lines of a Brick Wall
shift.owin Apply Vector Translation To Window
treeprune Prune Tree to Given Level
psp Create a Line Segment Pattern
textureplot Plot Image or Tessellation Using Texture Fill
reduced.sample Reduced Sample Estimator using Histogram Data
sumouter Compute Quadratic Forms
split.ppp Divide Point Pattern into Sub-patterns
slrm Spatial Logistic Regression
rMaternI Simulate Matern Model I
subset.hyperframe Subset of Hyperframe Satisfying A Condition
rcellnumber Generate Random Numbers of Points for Cell Process
quadrat.test.mppm Chi-Squared Test for Multiple Point Process Model Based on Quadrat Counts
runifpoint3 Generate N Uniform Random Points in Three Dimensions
superimpose Superimpose Several Geometric Patterns
range.fv Range of Function Values
redwoodfull California Redwoods Point Pattern (Entire Dataset)
tess Create a Tessellation
simulate.ppm Simulate a Fitted Gibbs Point Process Model
rQuasi Generate Quasirandom Point Pattern in Given Window
swedishpines Swedish Pines Point Pattern
rhohat Smoothing Estimate of Covariate Transformation
runifpointx Generate N Uniform Random Points in Any Dimensions
whist Weighted Histogram
print.ppm Print a Fitted Point Process Model
rpoislinetess Poisson Line Tessellation
union.quad Union of Data and Dummy Points
summary.quad Summarizing a Quadrature Scheme
transect.im Pixel Values Along a Transect
unnormdensity Weighted kernel smoother
update.kppm Update a Fitted Cluster Point Process Model
spatstat.options Internal Options in Spatstat Package
unmark Remove Marks
simulate.kppm Simulate a Fitted Cluster Point Process Model
rpoisppOnLines Generate Poisson Point Pattern on Line Segments
transmat Convert Pixel Array Between Different Conventions
rho2hat Smoothed Relative Density of Pairs of Covariate Values
trim.rectangle Cut margins from rectangle
plot.listof Plot a List of Things
pixelquad Quadrature Scheme Based on Pixel Grid
rotate Rotate
tile.areas Compute Areas of Tiles in a Tessellation
rVarGamma Simulate Neyman-Scott Point Process with Variance Gamma cluster kernel
update.rmhcontrol Update Control Parameters of Metropolis-Hastings Algorithm
spatialcdf Spatial Cumulative Distribution Function
stieltjes Compute Integral of Function Against Cumulative Distribution
yardstick Text, Arrow or Scale Bar in a Diagram
run.simplepanel Run Point-and-Click Interface
quantile.im Sample Quantiles of Pixel Image
vesicles Vesicles Data
residuals.kppm Residuals for Fitted Cox or Cluster Point Process Model
rmhstart Determine Initial State for Metropolis-Hastings Simulation.
vertices Vertices of a Window
rpoislpp Poisson Point Process on a Linear Network
psstA Pseudoscore Diagnostic For Fitted Model against Area-Interaction Alternative
subset.ppp Subset of Point Pattern Satisfying A Condition
setcov Set Covariance of a Window
tweak.colourmap Change Colour Values in a Colour Map
rmhmodel.list Define Point Process Model for Metropolis-Hastings Simulation.
pixellate.psp Convert Line Segment Pattern to Pixel Image
print.ppp Print Brief Details of a Point Pattern Dataset
will.expand Test Expansion Rule
rMosaicField Mosaic Random Field
shapley Galaxies in the Shapley Supercluster
rlinegrid Generate grid of parallel lines with random displacement
rmhmodel Define Point Process Model for Metropolis-Hastings Simulation.
rthin Random Thinning
summary.owin Summary of a Spatial Window
with.fv Evaluate an Expression in a Function Table
relrisk Estimate of Spatially-Varying Relative Risk
with.hyperframe Evaluate an Expression in Each Row of a Hyperframe
reach Interaction Distance of a Point Process
rat Ratio object
timed Record the Computation Time
summary.splitppp Summary of a Split Point Pattern
valid.ppm Check Whether Point Process Model is Valid
ppx Multidimensional Space-Time Point Pattern
plot.envelope Plot a Simulation Envelope
Poisson Poisson Point Process Model
Saturated Saturated Pairwise Interaction model
Lcross.inhom Inhomogeneous Cross Type L Function
StraussHard The Strauss / Hard Core Point Process Model
plot.scan.test Plot Result of Scan Test
summary.solist Summary of a List of Spatial Objects
square Square Window
rotate.ppp Rotate a Point Pattern
vargamma.estpcf Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
simulate.slrm Simulate a Fitted Spatial Logistic Regression Model
plot.msr Plot a Signed or Vector-Valued Measure
symbolmap Graphics Symbol Map
zapsmall.im Rounding of Pixel Values
simulate.lppm Simulate a Fitted Point Process Model on a Linear Network
as.data.frame.im Convert Pixel Image to Data Frame
rpoisppx Generate Poisson Point Pattern in Any Dimensions
vcov.kppm Variance-Covariance Matrix for a Fitted Cluster Point Process Model
affine.psp Apply Affine Transformation To Line Segment Pattern
summary.ppp Summary of a Point Pattern Dataset
PairPiece The Piecewise Constant Pairwise Interaction Point Process Model
Tstat Third order summary statistic
coef.slrm Coefficients of Fitted Spatial Logistic Regression Model
as.linnet.linim Extract Linear Network from Data on a Linear Network
cauchy.estK Fit the Neyman-Scott cluster process with Cauchy kernel
rotate.psp Rotate a Line Segment Pattern
bw.frac Bandwidth Selection Based on Window Geometry
Ldot.inhom Inhomogeneous Multitype L Dot Function
blur Apply Gaussian Blur to a Pixel Image
colourtools Convert and Compare Colours in Different Formats
MultiStrauss The Multitype Strauss Point Process Model
Smoothfun.ppp Smooth Interpolation of Marks as a Spatial Function
thomas.estK Fit the Thomas Point Process by Minimum Contrast
tiles Extract List of Tiles in a Tessellation
Math.im S3 Group Generic methods for images
as.hyperframe Convert Data to Hyperframe
pixelcentres Extract Pixel Centres as Point Pattern
pool Pool Data
areaGain Difference of Disc Areas
Ord Generic Ord Interaction model
density.lpp Kernel Estimate of Intensity on a Linear Network
compatible.fv Test Whether Function Objects Are Compatible
Math.linim S3 Group Generic Methods for Images on a Linear Network
diagnose.ppm Diagnostic Plots for Fitted Point Process Model
contour.imlist Array of Contour Plots
diameter.owin Diameter of a Window
closepairs Close Pairs of Points
coef.ppm Coefficients of Fitted Point Process Model
hopskel Hopkins-Skellam Test
scan.test Spatial Scan Test
dirichletAreas Compute Areas of Tiles in Dirichlet Tessellation
hyytiala Scots pines and other trees at Hyytiala
area.owin Area of a Window
grow.rectangle Add margins to rectangle
MultiHard The Multitype Hard Core Point Process Model
crossdist.lpp Pairwise distances between two point patterns on a linear network
applynbd Apply Function to Every Neighbourhood in a Point Pattern
as.hyperframe.ppx Extract coordinates and marks of multidimensional point pattern
distmap.ppp Distance Map of Point Pattern
solist List of Two-Dimensional Spatial Objects
erosion Morphological Erosion
Lest L-function
fvnames Abbreviations for Groups of Columns in Function Value Table
as.linim Convert to Pixel Image on Linear Network
alltypes Calculate Summary Statistic for All Types in a Multitype Point Pattern
as.ppm Extract Fitted Point Process Model
angles.psp Orientation Angles of Line Segments
anemones Beadlet Anemones Data
clip.infline Intersect Infinite Straight Lines with a Window
msr Signed or Vector-Valued Measure
SatPiece Piecewise Constant Saturated Pairwise Interaction Point Process Model
linearpcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
Smooth.fv Apply Smoothing to Function Values
Smooth Spatial smoothing of data
is.ppp Test Whether An Object Is A Point Pattern
domain Extract the Domain of any Spatial Object
Softcore The Soft Core Point Process Model
is.multitype.ppp Test Whether A Point Pattern is Multitype
dfbetas.ppm Parameter influence measure
as.data.frame.psp Coerce Line Segment Pattern to a Data Frame
lpp Create Point Pattern on Linear Network
matclust.estpcf Fit the Matern Cluster Point Process by Minimum Contrast Using Pair Correlation
linearpcfcross Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
Triplets The Triplet Point Process Model
bind.fv Combine Function Value Tables
beginner Print Introduction For Beginners
MultiStraussHard The Multitype/Hard Core Strauss Point Process Model
Kmulti Marked K-Function
Kscaled Locally Scaled K-function
clickbox Interactively Define a Rectangle
dmixpois Mixed Poisson Distribution
Smooth.ppp Spatial smoothing of observations at irregular points
pairdist.psp Pairwise distances between line segments
border Border Region of a Window
midpoints.psp Midpoints of Line Segment Pattern
kaplan.meier Kaplan-Meier Estimator using Histogram Data
as.psp Convert Data To Class psp
areaLoss Difference of Disc Areas
as.box3 Convert Data to Three-Dimensional Box
cdf.test.mppm Spatial Distribution Test for Multiple Point Process Model
as.ppp Convert Data To Class ppp
identify.ppp Identify Points in a Point Pattern
hist.im Histogram of Pixel Values in an Image
bw.smoothppp Cross Validated Bandwidth Selection for Spatial Smoothing
mucosa Cells in Gastric Mucosa
convexhull Convex Hull
methods.fii Methods for Fitted Interactions
compatible Test Whether Objects Are Compatible
anova.ppm ANOVA for Fitted Point Process Models
pp3 Three Dimensional Point Pattern
Lcross Multitype L-function (cross-type)
connected Connected components
clusterradius Compute or Extract Effective Range of Cluster Kernel
colourmap Colour Lookup Tables
texturemap Texture Map
as.rectangle Window Frame
intensity.quadratcount Intensity Estimates Using Quadrat Counts
matchingdist Distance for a Point Pattern Matching
cbind.hyperframe Combine Hyperframes by Rows or by Columns
Ksector Sector K-function
affine.lpp Apply Geometrical Transformations to Point Pattern on a Linear Network
disc Circular Window
quadrats Divide Region into Quadrats
nndist.lpp Nearest neighbour distances on a linear network
as.matrix.owin Convert Pixel Image to Matrix
simplify.owin Approximate a Polygon by a Simpler Polygon
interp.colourmap Interpolate smoothly between specified colours
WindowOnly Extract Window of Spatial Object
dirichlet Dirichlet Tessellation of Point Pattern
fitted.mppm Fitted Conditional Intensity for Multiple Point Process Model
Window Extract or Change the Window of a Spatial Object
as.fv Convert Data To Class fv
nncross.lpp Nearest Neighbours on a Linear Network
contour.im Contour plot of pixel image
allstats Calculate four standard summary functions of a point pattern.
clusterfit Fit Cluster or Cox Point Process Model via Minimum Contrast
as.mask Pixel Image Approximation of a Window
chicago Chicago Street Crime Data
pairdist.ppx Pairwise Distances in Any Dimensions
pcfmulti Marked pair correlation function
boxx Multi-Dimensional Box
pcf.fv Pair Correlation Function obtained from K Function
affine.tess Apply Geometrical Transformation To Tessellation
harmonise.fv Make Function Tables Compatible
beachcolours Create Colour Scheme for a Range of Numbers
append.psp Combine Two Line Segment Patterns
edges Extract Boundary Edges of a Window.
chop.tess Subdivide a Window or Tessellation using a Set of Lines
update.ppm Update a Fitted Point Process Model
Strauss The Strauss Point Process Model
ppm Fit Point Process Model to Data
bw.ppl Likelihood Cross Validation Bandwidth Selection for Kernel Density
is.rectangle Determine Type of Window
diameter Diameter of an Object
pairdist.pp3 Pairwise distances in Three Dimensions
as.solist Convert List of Two-Dimensional Spatial Objects
Pairwise Generic Pairwise Interaction model
commonGrid Determine A Common Spatial Domain And Pixel Resolution
marktable Tabulate Marks in Neighbourhood of Every Point in a Point Pattern
bramblecanes Hutchings' Bramble Canes data
linearmarkequal Mark Connection Function for Multitype Point Pattern on Linear Network
fardist Farthest Distance to Boundary of Window
anova.lppm ANOVA for Fitted Point Process Models on Linear Network
fasp.object Function Arrays for Spatial Patterns
compatible.im Test Whether Pixel Images Are Compatible
pcfdot Multitype pair correlation function (i-to-any)
clickpoly Interactively Define a Polygon
is.marked Test Whether Marks Are Present
clarkevans.test Clark and Evans Test
anova.mppm ANOVA for Fitted Multiple Point Process Models
closepairs.pp3 Close Pairs of Points in 3 Dimensions
addvar Added Variable Plot for Point Process Model
funxy Spatial Function Class
by.ppp Apply a Function to a Point Pattern Broken Down by Factor
cdf.test Spatial Distribution Test for Point Pattern or Point Process Model
distmap.psp Distance Map of Line Segment Pattern
intensity.lpp Empirical Intensity of Point Pattern on Linear Network
compatible.fasp Test Whether Function Arrays Are Compatible
localK Neighbourhood density function
crossing.psp Crossing Points of Two Line Segment Patterns
clarkevans Clark and Evans Aggregation Index
fitted.ppm Fitted Conditional Intensity for Point Process Model
nnfun Nearest Neighbour Index Map as a Function
japanesepines Japanese Pines Point Pattern
diameter.linnet Circumradius and Diameter of a Linear Network
methods.layered Methods for Layered Objects
is.convex Test Whether a Window is Convex
clmfires Castilla-La Mancha Forest Fires
linearK Linear K Function
LambertW Lambert's W Function
by.im Apply Function to Image Broken Down by Factor
rStraussHard Perfect Simulation of the Strauss-Hardcore Process
is.lpp Test Whether An Object Is A Point Pattern on a Linear Network
crossdist.default Pairwise distances between two different sets of points
affine.owin Apply Affine Transformation To Window
clusterkernel Extract Cluster Offspring Kernel
default.rmhcontrol Set Default Control Parameters for Metropolis-Hastings Algorithm.
fitin.ppm Extract the Interaction from a Fitted Point Process Model
as.mask.psp Convert Line Segment Pattern to Binary Pixel Mask
flu Influenza Virus Proteins
logLik.kppm Log Likelihood and AIC for Fitted Cox or Cluster Point Process Model
leverage.ppm Leverage Measure for Spatial Point Process Model
eem Exponential Energy Marks
harmonise.im Make Pixel Images Compatible
Linhom L-function
closing Morphological Closing
berman.test Berman's Tests for Point Process Model
latest.news Print News About Latest Version of Package
eval.linim Evaluate Expression Involving Pixel Images on Linear Network
foo Foo is Not a Real Name
distcdf Distribution Function of Interpoint Distance
cut.ppp Classify Points in a Point Pattern
envelope.envelope Recompute Envelopes
fv.object Function Value Table
is.subset.owin Determine Whether One Window is Contained In Another
anova.slrm Analysis of Deviance for Spatial Logistic Regression Models
default.expand Default Expansion Rule for Simulation of Model
density.psp Kernel Smoothing of Line Segment Pattern
delaunayNetwork Linear Network of Delaunay Triangulation or Dirichlet Tessellation
incircle Find Largest Circle Inside Window
begins Check Start of Character String
envelope.lpp Envelope for Point Patterns on Linear Network
methods.kppm Methods for Cluster Point Process Models
fitted.slrm Fitted Probabilities for Spatial Logistic Regression
amacrine Hughes' Amacrine Cell Data
data.ppm Extract Original Data from a Fitted Point Process Model
diameter.box3 Geometrical Calculations for Three-Dimensional Box
is.hybrid Test Whether Object is a Hybrid
flipxy Exchange X and Y Coordinates
as.im Convert to Pixel Image
owin.object Class owin
as.data.frame.owin Convert Window to Data Frame
ants Harkness-Isham ants' nests data
add.texture Fill Plot With Texture
edge.Trans Translation Edge Correction
eroded.areas Areas of Morphological Erosions
linfun Function on a Linear Network
ewcdf Weighted Empirical Cumulative Distribution Function
expand.owin Apply Expansion Rule
hyperframe Hyper Data Frame
gauss.hermite Gauss-Hermite Quadrature Approximation to Expectation for Normal Distribution
nndist.psp Nearest neighbour distances between line segments
perimeter Perimeter Length of Window
nncross.pp3 Nearest Neighbours Between Two Patterns in 3D
edges2vees List Dihedral Triples in a Graph
edges2triangles List Triangles in a Graph
envelope.pp3 Simulation Envelopes of Summary Function for 3D Point Pattern
as.data.frame.ppp Coerce Point Pattern to a Data Frame
pcf Pair Correlation Function
lansing Lansing Woods Point Pattern
moribund Outdated Functions
nnmark Mark of Nearest Neighbour
as.matrix.im Convert Pixel Image to Matrix or Array
owin Create a Window
markconnect Mark Connection Function
harmonise Make Objects Compatible
nearestsegment Find Line Segment Nearest to Each Point
convolve.im Convolution of Pixel Images
lgcp.estpcf Fit a Log-Gaussian Cox Point Process by Minimum Contrast
harmonic Basis for Harmonic Functions
letterR Window in Shape of Letter R
cells Biological Cells Point Pattern
envelope Simulation Envelopes of Summary Function
bw.stoyan Stoyan's Rule of Thumb for Bandwidth Selection
clickppp Interactively Add Points
idw Inverse-distance weighted smoothing of observations at irregular points
as.function.fv Convert Function Value Table to Function
eval.fasp Evaluate Expression Involving Function Arrays
methods.linnet Methods for Linear Networks
clickdist Interactively Measure Distance
dummy.ppm Extract Dummy Points Used to Fit a Point Process Model
iplot Point and Click Interface for Displaying Spatial Data
dilated.areas Areas of Morphological Dilations
compareFit Residual Diagnostics for Multiple Fitted Models
overlap.owin Compute Area of Overlap
clusterfield Field of clusters
bdist.pixels Distance to Boundary of Window
is.marked.ppp Test Whether A Point Pattern is Marked
linearKinhom Inhomogeneous Linear K Function
lut Lookup Tables
as.layered Convert Data To Layered Object
maxnndist Compute Minimum or Maximum Nearest-Neighbour Distance
levelset Level Set of a Pixel Image
inforder.family Infinite Order Interaction Family
betacells Beta Ganglion Cells in Cat Retina
copyExampleFiles Copy Data Files for Example
copper Berman-Huntington points and lines data
as.interact Extract Interaction Structure
linearKcross.inhom Inhomogeneous multitype K Function (Cross-type) for Linear Point Pattern
npfun Dummy Function Returns Number of Points
nnclean Nearest Neighbour Clutter Removal
nndist Nearest neighbour distances
matclust.estK Fit the Matern Cluster Point Process by Minimum Contrast
delaunayDistance Distance on Delaunay Triangulation
dirichletVertices Vertices and Edges of Dirichlet Tessellation
longleaf Longleaf Pines Point Pattern
paracou Kimboto trees at Paracou, French Guiana
methods.rho2hat Methods for Intensity Functions of Two Spatial Covariates
im.object Class of Images
fv Create a Function Value Table
panel.contour Panel Plots using Colour Image or Contour Lines
markvario Mark Variogram
multiplicity.ppp Count Multiplicity of Duplicate Points
crossdist Pairwise distances
centroid.owin Centroid of a window
is.stationary Recognise Stationary and Poisson Point Process Models
linearpcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
lohboot Bootstrap Confidence Bands for Summary Function
linearpcfinhom Inhomogeneous Linear Pair Correlation Function
lineardisc Compute Disc of Given Radius in Linear Network
model.images Compute Images of Constructed Covariates
LennardJones The Lennard-Jones Potential
density.ppp Kernel Smoothed Intensity of Point Pattern
rescale.owin Convert Window to Another Unit of Length
ganglia Beta Ganglion Cells in Cat Retina, Old Version
pairdist.lpp Pairwise shortest-path distances between points on a linear network
linearpcfdot Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
nbfires Point Patterns of New Brunswick Forest Fires
gordon People in Gordon Square
linnet Create a Linear Network
ellipse Elliptical Window.
pairdist Pairwise distances
mincontrast Method of Minimum Contrast
nestsplit Nested Split
collapse.fv Collapse Several Function Tables into One
is.ppm Test Whether An Object Is A Fitted Point Process Model
model.matrix.slrm Extract Design Matrix from Spatial Logistic Regression Model
deletebranch Delete or Extract a Branch of a Tree
dilation Morphological Dilation
corners Corners of a rectangle
bdspots Breakdown Spots in Microelectronic Materials
effectfun Compute Fitted Effect of a Spatial Covariate in a Point Process Model
coords Extract or Change Coordinates of a Spatial or Spatiotemporal Point Pattern
integral.im Integral of a Pixel Image
localKinhom Inhomogeneous Neighbourhood Density Function
increment.fv Increments of a Function
linearmarkconnect Mark Connection Function for Multitype Point Pattern on Linear Network
methods.slrm Methods for Spatial Logistic Regression Models
kppm Fit Cluster or Cox Point Process Model
marks.psp Marks of a Line Segment Pattern
objsurf Objective Function Surface
circumradius Circumradius of a Window
distmap.owin Distance Map of Window
is.empty Test Whether An Object Is Empty
circdensity Density Estimation for Circular Data
methods.linfun Methods for Functions on Linear Network
as.lpp Convert Data to a Point Pattern on a Linear Network
eval.fv Evaluate Expression Involving Functions
branchlabelfun Tree Branch Membership Labelling Function
is.dppm Recognise Fitted Determinantal Point Process Models
crossdist.ppx Pairwise Distances Between Two Different Multi-Dimensional Point Patterns
pcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-Type)
methods.units Methods for Units
pairdist.default Pairwise distances
ord.family Ord Interaction Process Family
coef.mppm Coefficients of Point Process Model Fitted to Multiple Point Patterns
is.marked.ppm Test Whether A Point Process Model is Marked
as.function.im Convert Pixel Image to Function of Coordinates
intersect.owin Intersection, Union or Set Subtraction of Windows
linim Create Pixel Image on Linear Network
affine Apply Affine Transformation
Replace.im Reset Values in Subset of Image
hamster Aherne's hamster tumour data
concatxy Concatenate x,y Coordinate Vectors
nncorr Nearest-Neighbour Correlation Indices of Marked Point Pattern
linearpcf Linear Pair Correlation Function
bw.scott Scott's Rule for Bandwidth Selection for Kernel Density
methods.funxy Methods for Spatial Functions
Ldot Multitype L-function (i-to-any)
layerplotargs Extract or Replace the Plot Arguments of a Layered Object
pcfcross Multitype pair correlation function (cross-type)
as.data.frame.hyperframe Coerce Hyperframe to Data Frame
harmonise.owin Make Windows Compatible
logLik.ppm Log Likelihood and AIC for Point Process Model
OrdThresh Ord's Interaction model
murchison Murchison gold deposits
nearest.raster.point Find Pixel Nearest to a Given Point
infline Infinite Straight Lines
mean.im Maximum, Minimum, Mean, Median, Range or Sum of Pixel Values in an Image
dclf.progress Progress Plot of Test of Spatial Pattern
clickjoin Interactively join vertices on a plot
pcf.ppp Pair Correlation Function of Point Pattern
dendrite Dendritic Spines Data
parres Partial Residuals for Point Process Model
methods.rhohat Methods for Intensity Functions of Spatial Covariate
nndist.ppx Nearest Neighbour Distances in Any Dimensions
periodify Make Periodic Copies of a Spatial Pattern
bronzefilter Bronze gradient filter data
linearKcross Multitype K Function (Cross-type) for Linear Point Pattern
bounding.box.xy Convex Hull of Points
bw.relrisk Cross Validated Bandwidth Selection for Relative Risk Estimation
integral.linim Integral on a Linear Network
bei Tropical rain forest trees
pairdist.ppp Pairwise distances
Kovesi Colour Sequences with Uniform Perceptual Contrast
discretise Safely Convert Point Pattern Window to Binary Mask
distfun Distance Map as a Function
distmap Distance Map
identify.psp Identify Segments in a Line Segment Pattern
is.im Test Whether An Object Is A Pixel Image
boundingbox Bounding Box of a Window, Image, or Point Pattern
nnwhich.lpp Identify Nearest Neighbours on a Linear Network
cut.im Convert Pixel Image from Numeric to Factor
methods.objsurf Methods for Objective Function Surfaces
gorillas Gorilla Nesting Sites
nnwhich.pp3 Nearest neighbours in three dimensions
humberside Humberside Data on Childhood Leukaemia and Lymphoma
intersect.tess Intersection of Two Tessellations
intensity Intensity of a Dataset or a Model
pcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Type-i-To-Any-Type)
pairorient Point Pair Orientation Distribution
marks.tess Marks of a Tessellation
finpines Pine saplings in Finland.
diameter.boxx Geometrical Calculations for Multi-Dimensional Box
delaunay Delaunay Triangulation of Point Pattern
lppm Fit Point Process Model to Point Pattern on Linear Network
discs Union of Discs
invoke.symbolmap Plot Data Using Graphics Symbol Map
gridcentres Rectangular grid of points
layered Create List of Plotting Layers
pcfinhom Inhomogeneous Pair Correlation Function
methods.pp3 Methods for three-dimensional point patterns
interp.im Interpolate a Pixel Image
dummify Convert Data to Numeric Values by Constructing Dummy Variables
im Create a Pixel Image Object
nndensity.ppp Estimate Intensity of Point Pattern Using Nearest Neighbour Distances
im.apply Apply Function Pixelwise to List of Images
lengths.psp Lengths of Line Segments
endpoints.psp Endpoints of Line Segment Pattern
osteo Osteocyte Lacunae Data: Replicated Three-Dimensional Point Patterns
marks Marks of a Point Pattern
Kres Residual K Function
linearKdot Multitype K Function (Dot-type) for Linear Point Pattern
nnmap K-th Nearest Point Map
deltametric Delta Metric
localpcf Local pair correlation function
exactMPLEstrauss Exact Maximum Pseudolikelihood Estimate for Stationary Strauss Process
dirichletWeights Compute Quadrature Weights Based on Dirichlet Tessellation
methods.lppm Methods for Fitted Point Process Models on a Linear Network
inside.owin Test Whether Points Are Inside A Window
Smooth.msr Smooth a Signed or Vector-Valued Measure
pcf3est Pair Correlation Function of a Three-Dimensional Point Pattern
gridweights Compute Quadrature Weights Based on Grid Counts
edit.hyperframe Invoke Text Editor on Hyperframe
quadratcount Quadrat counting for a point pattern
nnfun.lpp Nearest Neighbour Map on Linear Network
nsegments Number of Line Segments in a Line Segment Pattern
ppm.object Class of Fitted Point Process Models
miplot Morisita Index Plot
integral.msr Integral of a Measure
fryplot Fry Plot of Point Pattern
km.rs Kaplan-Meier and Reduced Sample Estimator using Histograms
lurking Lurking variable plot
as.tess Convert Data To Tessellation
lgcp.estK Fit a Log-Gaussian Cox Point Process by Minimum Contrast
heather Diggle's Heather Data
istat Point and Click Interface for Exploratory Analysis of Point Pattern
layout.boxes Generate a Row or Column Arrangement of Rectangles.
as.linnet.psp Convert Line Segment Pattern to Linear Network
is.multitype Test whether Object is Multitype
dclf.test Diggle-Cressie-Loosmore-Ford and Maximum Absolute Deviation Tests
npoints Number of Points in a Point Pattern
adaptive.density Intensity Estimate of Point Pattern Using Tessellation
crossdist.ppp Pairwise distances between two different point patterns
complement.owin Take Complement of a Window
eval.im Evaluate Expression Involving Pixel Images
influence.ppm Influence Measure for Spatial Point Process Model
markcorr Mark Correlation Function
model.matrix.ppm Extract Design Matrix from Point Process Model
anylist List of Objects
auc Area Under ROC Curve
discpartarea Area of Part of Disc
pairs.im Scatterplot Matrix for Pixel Images
methods.box3 Methods for Three-Dimensional Box
model.frame.ppm Extract the Variables in a Point Process Model
nnwhich.ppx Nearest Neighbours in Any Dimensions
crossdist.pp3 Pairwise distances between two different three-dimensional point patterns
bw.diggle Cross Validated Bandwidth Selection for Kernel Density
pairwise.family Pairwise Interaction Process Family
parameters Extract Model Parameters in Understandable Form
chorley Chorley-Ribble Cancer Data
nndist.pp3 Nearest neighbour distances in three dimensions
as.polygonal Convert a Window to a Polygonal Window
methods.ppx Methods for Multidimensional Space-Time Point Patterns
edit.ppp Invoke Text Editor on Spatial Data
hybrid.family Hybrid Interaction Family
deriv.fv Calculate Derivative of Function Values
default.dummy Generate a Default Pattern of Dummy Points
cauchy.estpcf Fit the Neyman-Scott cluster process with Cauchy kernel
affine.im Apply Affine Transformation To Pixel Image
nnwhich Nearest neighbour
methods.lpp Methods for Point Patterns on a Linear Network
box3 Three-Dimensional Box
nnorient Nearest Neighbour Orientation Distribution
formula.ppm Model Formulae for Gibbs Point Process Models
demohyper Demonstration Example of Hyperframe of Spatial Data
clusterset Allard-Fraley Estimator of Cluster Feature
connected.ppp Connected components of a point pattern
hierpair.family Hierarchical Pairwise Interaction Process Family
convexhull.xy Convex Hull of Points
edge.Ripley Ripley's Isotropic Edge Correction
intensity.ppm Intensity of Fitted Point Process Model
hextess Hexagonal Grid or Tessellation
methods.linim Methods for Images on a Linear Network
intensity.ppp Empirical Intensity of Point Pattern
improve.kppm Improve Intensity Estimate of Fitted Cluster Point Process Model
crossdist.psp Pairwise distances between two different line segment patterns
duplicated.ppp Determine Duplicated Points in a Spatial Point Pattern
nztrees New Zealand Trees Point Pattern
affine.linnet Apply Geometrical Transformations to a Linear Network
methods.boxx Methods for Multi-Dimensional Box
logLik.slrm Loglikelihood of Spatial Logistic Regression
distfun.lpp Distance Map on Linear Network
is.multitype.ppm Test Whether A Point Process Model is Multitype
persp.im Perspective Plot of Pixel Image
is.owin Test Whether An Object Is A Window
logLik.mppm Log Likelihood for Poisson Point Process Model
nncross Nearest Neighbours Between Two Patterns
model.depends Identify Covariates Involved in each Model Term
mergeLevels Merge Levels of a Factor
as.owin Convert Data To Class owin
mppm Fit Point Process Model to Several Point Patterns
linearKdot.inhom Inhomogeneous multitype K Function (Dot-type) for Linear Point Pattern
imcov Spatial Covariance of a Pixel Image
formula.fv Extract or Change the Plot Formula for a Function Value Table
markstat Summarise Marks in Every Neighbourhood in a Point Pattern
pairsat.family Saturated Pairwise Interaction Point Process Family
padimage Pad the Border of a Pixel Image
pcf.fasp Pair Correlation Function obtained from array of K functions
opening Morphological Opening
affine.ppp Apply Affine Transformation To Point Pattern
ippm Fit Point Process Model Involving Irregular Trend Parameters
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Nickname Vogon Poetry
Date 2015-06-05
License GPL (>= 2)
URL http://www.spatstat.org
LazyData true
NeedsCompilation yes
ByteCompile true
Packaged 2015-06-05 16:26:05 UTC; adrian
Repository CRAN
Date/Publication 2015-06-05 20:05:20

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