spatstat v1.42-2

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by Adrian Baddeley

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

Comprehensive open-source 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
Extract.listof Extract or Replace Subset of a List of Things
Extract.layered Extract or Replace Subset of a Layered Object
Extract.lpp Extract Subset of Point Pattern on Linear Network
BadGey Hybrid Geyer Point Process Model
DiggleGratton Diggle-Gratton model
Hybrid Hybrid Interaction Point Process Model
Lcross.inhom Inhomogeneous Cross Type L Function
Extract.influence.ppm Extract Subset of Influence Object
Gres Residual G Function
Extract.fv Extract or Replace Subset of Function Values
Emark Diagnostics for random marking
Extract.splitppp Extract or Replace Sub-Patterns
Extract.hyperframe Extract or Replace Subset of Hyperframe
Hardcore The Hard Core Point Process Model
adaptive.density Intensity Estimate of Point Pattern Using Tessellation
F3est Empty Space Function of a Three-Dimensional Point Pattern
Extract.owin Extract Subset of Window
Iest Estimate the I-function
HierStrauss The Hierarchical Strauss Point Process Model
Concom The Connected Component Process Model
Lcross Multitype L-function (cross-type)
Math.linim S3 Group Generic Methods for Images on a Linear Network
Ldot Multitype L-function (i-to-any)
Extract.linnet Extract Subset of Linear Network
Extract.fasp Extract Subset of Function Array
Gfox Foxall's Distance Functions
Gdot Multitype Nearest Neighbour Distance Function (i-to-any)
DiggleGatesStibbard Diggle-Gates-Stibbard Point Process Model
Ginhom Inhomogeneous Nearest Neighbour Function
as.data.frame.psp Coerce Line Segment Pattern to a Data Frame
Ldot.inhom Inhomogeneous Multitype L Dot Function
anemones Beadlet Anemones Data
Extract.leverage.ppm Extract Subset of Leverage Object
G3est Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern
Smoothfun.ppp Smooth Interpolation of Marks as a Spatial Function
Extract.ppp Extract or Replace Subset of Point Pattern
AreaInter The Area Interaction Point Process Model
Fest Estimate the Empty Space Function or its Hazard Rate
angles.psp Orientation Angles of Line Segments
Kovesi Colour Sequences with Uniform Perceptual Contrast
anova.mppm ANOVA for Fitted Multiple Point Process Models
Gcross Multitype Nearest Neighbour Distance Function (i-to-j)
Kest K-function
Extract.solist Extract or Replace Subset of a List of Spatial Objest
Geyer Geyer's Saturation Point Process Model
Jinhom Inhomogeneous J-function
Gmulti Marked Nearest Neighbour Distance Function
Gest Nearest Neighbour Distance Function G
Extract.anylist Extract or Replace Subset of a List of Things
Frame Extract or Change the Containing Rectangle of a Spatial Object
LennardJones The Lennard-Jones Potential
Triplets The Triplet Point Process Model
affine.lpp Apply Geometrical Transformations to Point Pattern on a Linear Network
Lest L-function
Jcross Multitype J Function (i-to-j)
Softcore The Soft Core Point Process Model
affine.owin Apply Affine Transformation To Window
Pairwise Generic Pairwise Interaction model
Kdot Multitype K Function (i-to-any)
Gcom Model Compensator of Nearest Neighbour Function
HierHard The Hierarchical Hard Core Point Process Model
Math.im S3 Group Generic methods for images
LambertW Lambert's W Function
Tstat Third order summary statistic
Kmodel.kppm K Function or Pair Correlation Function of Cluster Model or Cox model
as.linim Convert to Pixel Image on Linear Network
Finhom Inhomogeneous Empty Space Function
Extract.tess Extract or Replace Subset of Tessellation
StraussHard The Strauss / Hard Core Point Process Model
MultiStraussHard The Multitype/Hard Core Strauss Point Process Model
Extract.quad Subset of Quadrature Scheme
as.psp Convert Data To Class psp
Extract.psp Extract Subset of Line Segment Pattern
Poisson Poisson Point Process Model
Kmeasure Reduced Second Moment Measure
Kscaled Locally Scaled K-function
Kcross.inhom Inhomogeneous Cross K Function
by.im Apply Function to Image Broken Down by Factor
Kinhom Inhomogeneous K-function
as.polygonal Convert a Window to a Polygonal Window
cdf.test Spatial Distribution Test for Point Pattern or Point Process Model
affine.psp Apply Affine Transformation To Line Segment Pattern
Extract.msr Extract Subset of Signed or Vector Measure
Kmark Mark-Weighted K Function
as.matrix.im Convert Pixel Image to Matrix or Array
boxx Multi-Dimensional Box
Jest Estimate the J-function
affine.linnet Apply Geometrical Transformations to a Linear Network
Extract.ppx Extract Subset of Multidimensional Point Pattern
applynbd Apply Function to Every Neighbourhood in a Point Pattern
Fiksel The Fiksel Interaction
Extract.im Extract Subset of Image
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
Jmulti Marked J Function
Jdot Multitype J Function (i-to-any)
Kmulti Marked K-Function
SatPiece Piecewise Constant Saturated Pairwise Interaction Point Process Model
Kmodel.ppm K Function or Pair Correlation Function of Gibbs Point Process model
Hest Spherical Contact Distribution Function
Kcom Model Compensator of K Function
HierStraussHard The Hierarchical Strauss Hard Core Point Process Model
WindowOnly Extract Window of Spatial Object
Replace.im Reset Values in Subset of Image
Ord Generic Ord Interaction model
Kcross Multitype K Function (Cross-type)
Strauss The Strauss Point Process Model
Kest.fft K-function using FFT
Kmodel K Function or Pair Correlation Function of a Point Process Model
affine.im Apply Affine Transformation To Pixel Image
compatible.fv Test Whether Function Objects Are Compatible
convexhull Convex Hull
blur Apply Gaussian Blur to a Pixel Image
as.data.frame.ppp Coerce Point Pattern to a Data Frame
Kdot.inhom Inhomogeneous Multitype K Dot Function
as.layered Convert Data To Layered Object
Ksector Sector K-function
bw.frac Bandwidth Selection Based on Window Geometry
bdist.points Distance to Boundary of Window
as.solist Convert List of Two-Dimensional Spatial Objects
clip.infline Intersect Infinite Straight Lines with a Window
Kmulti.inhom Inhomogeneous Marked K-Function
bramblecanes Hutchings' Bramble Canes data
MultiStrauss The Multitype Strauss Point Process Model
Smooth.msr Smooth a Signed or Vector-Valued Measure
as.matrix.owin Convert Pixel Image to Matrix
as.hyperframe Convert Data to Hyperframe
as.lpp Convert Data to a Point Pattern on a Linear Network
Linhom L-function
as.im Convert to Pixel Image
clarkevans.test Clark and Evans Test
Window Extract or Change the Window of a Spatial Object
as.box3 Convert Data to Three-Dimensional Box
PairPiece The Piecewise Constant Pairwise Interaction Point Process Model
as.fv Convert Data To Class fv
coef.mppm Coefficients of Point Process Model Fitted to Multiple Point Patterns
clarkevans Clark and Evans Aggregation Index
affine Apply Affine Transformation
MultiHard The Multitype Hard Core Point Process Model
affine.tess Apply Geometrical Transformation To Tessellation
anylist List of Objects
as.hyperframe.ppx Extract coordinates and marks of multidimensional point pattern
as.ppm Extract Fitted Point Process Model
connected Connected components
area.owin Area of a Window
as.function.im Convert Pixel Image to Function of Coordinates
by.ppp Apply a Function to a Point Pattern Broken Down by Factor
ants Harkness-Isham ants' nests data
bw.stoyan Stoyan's Rule of Thumb for Bandwidth Selection
clickpoly Interactively Define a Polygon
clusterradius Compute or Extract Effective Range of Cluster Kernel
as.linnet.psp Convert Line Segment Pattern to Linear Network
Saturated Saturated Pairwise Interaction model
compatible Test Whether Objects Are Compatible
bw.ppl Likelihood Cross Validation Bandwidth Selection for Kernel Density
chorley Chorley-Ribble Cancer Data
Smooth.fv Apply Smoothing to Function Values
areaGain Difference of Disc Areas
Smooth Spatial smoothing of data
Kres Residual K Function
bind.fv Combine Function Value Tables
branchlabelfun Tree Branch Membership Labelling Function
circumradius Circumradius of a Window
closepairs.pp3 Close Pairs of Points in 3 Dimensions
begins Check Start of Character String
OrdThresh Ord's Interaction model
circdensity Density Estimation for Circular Data
clusterset Allard-Fraley Estimator of Cluster Feature
corners Corners of a rectangle
data.ppm Extract Original Data from a Fitted Point Process Model
compatible.im Test Whether Pixel Images Are Compatible
coef.ppm Coefficients of Fitted Point Process Model
colourmap Colour Lookup Tables
beachcolours Create Colour Scheme for a Range of Numbers
commonGrid Determine A Common Spatial Domain And Pixel Resolution
bdspots Breakdown Spots in Microelectronic Materials
anova.ppm ANOVA for Fitted Point Process Models
convexhull.xy Convex Hull of Points
append.psp Combine Two Line Segment Patterns
clusterfield Field of clusters
as.ppp Convert Data To Class ppp
cauchy.estK Fit the Neyman-Scott cluster process with Cauchy kernel
as.data.frame.owin Convert Window to Data Frame
berman.test Berman's Tests for Point Process Model
bw.relrisk Cross Validated Bandwidth Selection for Relative Risk Estimation
addvar Added Variable Plot for Point Process Model
contour.imlist Array of Contour Plots
add.texture Fill Plot With Texture
closing Morphological Closing
as.linnet.linim Extract Linear Network from Data on a Linear Network
as.rectangle Window Frame
chop.tess Subdivide a Window or Tessellation using a Set of Lines
colourtools Convert and Compare Colours in Different Formats
as.tess Convert Data To Tessellation
bounding.box.xy Convex Hull of Points
clickjoin Interactively join vertices on a plot
beginner Print Introduction For Beginners
bdist.pixels Distance to Boundary of Window
affine.ppp Apply Affine Transformation To Point Pattern
crossdist.pp3 Pairwise distances between two different three-dimensional point patterns
as.mask Pixel Image Approximation of a Window
bei Tropical rain forest trees
bronzefilter Bronze gradient filter data
allstats Calculate four standard summary functions of a point pattern.
chicago Chicago Street Crime Data
clickdist Interactively Measure Distance
crossdist.lpp Pairwise distances between two point patterns on a linear network
boundingbox Bounding Box of a Window, Image, or Point Pattern
anova.lppm ANOVA for Fitted Point Process Models on Linear Network
clusterkernel Extract Cluster Offspring Kernel
contour.im Contour plot of pixel image
as.function.fv Convert Function Value Table to Function
copyExampleFiles Copy Data Files for Example
as.mask.psp Convert Line Segment Pattern to Binary Pixel Mask
as.owin Convert Data To Class owin
border Border Region of a Window
clickbox Interactively Define a Rectangle
cells Biological Cells Point Pattern
cauchy.estpcf Fit the Neyman-Scott cluster process with Cauchy kernel
clmfires Castilla-La Mancha Forest Fires
clickppp Interactively Add Points
coef.slrm Coefficients of Fitted Spatial Logistic Regression Model
compatible.fasp Test Whether Function Arrays Are Compatible
complement.owin Take Complement of a Window
compareFit Residual Diagnostics for Multiple Fitted Models
betacells Beta Ganglion Cells in Cat Retina
closepairs Close Pairs of Points
bdist.tiles Distance to Boundary of Window
bw.diggle Cross Validated Bandwidth Selection for Kernel Density
bw.scott Scott's Rule for Bandwidth Selection for Kernel Density
coords Extract or Change Coordinates of a Spatial or Spatiotemporal Point Pattern
clusterfit Fit Cluster or Cox Point Process Model via Minimum Contrast
box3 Three-Dimensional Box
connected.ppp Connected components of a point pattern
bw.smoothppp Cross Validated Bandwidth Selection for Spatial Smoothing
cbind.hyperframe Combine Hyperframes by Rows or by Columns
concatxy Concatenate x,y Coordinate Vectors
cdf.test.mppm Spatial Distribution Test for Multiple Point Process Model
K3est K-function of a Three-Dimensional Point Pattern
convolve.im Convolution of Pixel Images
anova.slrm Analysis of Deviance for Spatial Logistic Regression Models
as.data.frame.im Convert Pixel Image to Data Frame
areaLoss Difference of Disc Areas
as.data.frame.hyperframe Coerce Hyperframe to Data Frame
collapse.fv Collapse Several Function Tables into One
as.interact Extract Interaction Structure
auc Area Under ROC Curve
centroid.owin Centroid of a window
crossdist Pairwise distances
copper Berman-Huntington points and lines data
crossdist.default Pairwise distances between two different sets of points
deriv.fv Calculate Derivative of Function Values
disc Circular Window
edges2triangles List Triangles in a Graph
delaunayDistance Distance on Delaunay Triangulation
edit.hyperframe Invoke Text Editor on Hyperframe
domain Extract the Domain of any Spatial Object
eval.im Evaluate Expression Involving Pixel Images
distcdf Distribution Function of Interpoint Distance
flipxy Exchange X and Y Coordinates
density.ppp Kernel Smoothed Intensity of Point Pattern
ellipse Elliptical Window.
gridweights Compute Quadrature Weights Based on Grid Counts
is.hybrid Test Whether Object is a Hybrid
default.expand Default Expansion Rule for Simulation of Model
fitted.lppm Fitted Intensity for Point Process on Linear Network
is.multitype Test whether Object is Multitype
diameter.boxx Geometrical Calculations for Multi-Dimensional Box
finpines Pine saplings in Finland.
cut.im Convert Pixel Image from Numeric to Factor
fitted.mppm Fitted Conditional Intensity for Multiple Point Process Model
density.psp Kernel Smoothing of Line Segment Pattern
cut.ppp Classify Points in a Point Pattern
expand.owin Apply Expansion Rule
is.subset.owin Determine Whether One Window is Contained In Another
dclf.progress Progress Plot of Test of Spatial Pattern
identify.psp Identify Segments in a Line Segment Pattern
dilation Morphological Dilation
is.rectangle Determine Type of Window
lohboot Bootstrap Confidence Bands for Summary Function
methods.rho2hat Methods for Intensity Functions of Two Spatial Covariates
demopat Artificial Data Point Pattern
demohyper Demonstration Example of Hyperframe of Spatial Data
identify.ppp Identify Points in a Point Pattern
fv.object Function Value Table
dfbetas.ppm Parameter influence measure
flu Influenza Virus Proteins
crossdist.ppp Pairwise distances between two different point patterns
dendrite Dendritic Spines Data
effectfun Compute Fitted Effect of a Spatial Covariate in a Point Process Model
infline Infinite Straight Lines
lgcp.estpcf Fit a Log-Gaussian Cox Point Process by Minimum Contrast
distmap Distance Map
formula.ppm Model Formulae for Gibbs Point Process Models
multiplicity.ppp Count Multiplicity of Duplicate Points
grow.rectangle Add margins to rectangle
deletebranch Delete or Extract a Branch of a Tree
im.object Class of Images
dummy.ppm Extract Dummy Points Used to Fit a Point Process Model
linfun Function on a Linear Network
delaunay Delaunay Triangulation of Point Pattern
density.splitppp Kernel Smoothed Intensity of Split Point Pattern
distfun Distance Map as a Function
ewcdf Weighted Empirical Cumulative Distribution Function
dilated.areas Areas of Morphological Dilations
localK Neighbourhood density function
dirichletWeights Compute Quadrature Weights Based on Dirichlet Tessellation
is.lpp Test Whether An Object Is A Point Pattern on a Linear Network
default.dummy Generate a Default Pattern of Dummy Points
edge.Ripley Ripley's Isotropic Edge Correction
hierpair.family Hierarchical Pairwise Interaction Process Family
dirichletVertices Vertices and Edges of Dirichlet Tessellation
diagnose.ppm Diagnostic Plots for Fitted Point Process Model
diameter.linnet Circumradius and Diameter of a Linear Network
istat Point and Click Interface for Exploratory Analysis of Point Pattern
km.rs Kaplan-Meier and Reduced Sample Estimator using Histograms
diameter.box3 Geometrical Calculations for Three-Dimensional Box
ganglia Beta Ganglion Cells in Cat Retina, Old Version
linearKcross Multitype K Function (Cross-type) for Linear Point Pattern
edges2vees List Dihedral Triples in a Graph
envelope.envelope Recompute Envelopes
hist.im Histogram of Pixel Values in an Image
crossdist.psp Pairwise distances between two different line segment patterns
exactMPLEstrauss Exact Maximum Pseudolikelihood Estimate for Stationary Strauss Process
delaunayNetwork Linear Network of Delaunay Triangulation or Dirichlet Tessellation
fasp.object Function Arrays for Spatial Patterns
harmonise Make Objects Compatible
localpcf Local pair correlation function
hextess Hexagonal Grid or Tessellation
diameter Diameter of an Object
distmap.psp Distance Map of Line Segment Pattern
default.rmhcontrol Set Default Control Parameters for Metropolis-Hastings Algorithm.
increment.fv Increments of a Function
edges Extract Boundary Edges of a Window.
dmixpois Mixed Poisson Distribution
distmap.owin Distance Map of Window
envelope.lpp Envelope for Point Patterns on Linear Network
discretise Safely Convert Point Pattern Window to Binary Mask
eval.linim Evaluate Expression Involving Pixel Images on Linear Network
crossing.psp Crossing Points of Two Line Segment Patterns
fitted.ppm Fitted Conditional Intensity for Point Process Model
is.convex Test Whether a Window is Convex
fitted.slrm Fitted Probabilities for Spatial Logistic Regression
discpartarea Area of Part of Disc
eval.fasp Evaluate Expression Involving Function Arrays
erosion Morphological Erosion
lut Lookup Tables
eem Exponential Energy Marks
endpoints.psp Endpoints of Line Segment Pattern
im Create a Pixel Image Object
deltametric Delta Metric
is.owin Test Whether An Object Is A Window
funxy Spatial Function Class
eval.fv Evaluate Expression Involving Functions
envelope.pp3 Simulation Envelopes of Summary Function for 3D Point Pattern
logLik.slrm Loglikelihood of Spatial Logistic Regression
fryplot Fry Plot of Point Pattern
harmonise.fv Make Function Tables Compatible
inforder.family Infinite Order Interaction Family
envelope Simulation Envelopes of Summary Function
linnet Create a Linear Network
influence.ppm Influence Measure for Spatial Point Process Model
harmonise.im Make Pixel Images Compatible
marktable Tabulate Marks in Neighbourhood of Every Point in a Point Pattern
overlap.owin Compute Area of Overlap
markcorr Mark Correlation Function
marks Marks of a Point Pattern
kaplan.meier Kaplan-Meier Estimator using Histogram Data
distmap.ppp Distance Map of Point Pattern
markvario Mark Variogram
methods.units Methods for Units
fardist Farthest Distance to Boundary of Window
linearKinhom Inhomogeneous Linear K Function
fvnames Abbreviations for Groups of Columns in Function Value Table
pairdist Pairwise distances
hamster Aherne's hamster tumour data
nnmark Mark of Nearest Neighbour
lgcp.estK Fit a Log-Gaussian Cox Point Process by Minimum Contrast
layered Create List of Plotting Layers
pairdist.pp3 Pairwise distances in Three Dimensions
msr Signed or Vector-Valued Measure
nndist.psp Nearest neighbour distances between line segments
linearmarkconnect Mark Connection Function for Multitype Point Pattern on Linear Network
fitin.ppm Extract the Interaction from a Fitted Point Process Model
nndist Nearest neighbour distances
gorillas Gorilla Nesting Sites
incircle Find Largest Circle Inside Window
imcov Spatial Covariance of a Pixel Image
inside.owin Test Whether Points Are Inside A Window
pcf.fv Pair Correlation Function obtained from K Function
paracou Kimboto trees at Paracou, French Guiana
nnfun.lpp Nearest Neighbour Map on Linear Network
plot.solist Plot a List of Spatial Objects
gordon People in Gordon Square
improve.kppm Improve Intensity Estimate of Fitted Cluster Point Process Model
is.dppm Recognise Fitted Determinantal Point Process Models
hyytiala Scots pines and other trees at Hyytiala
hyperframe Hyper Data Frame
iplot Point and Click Interface for Displaying Spatial Data
gauss.hermite Gauss-Hermite Quadrature Approximation to Expectation for Normal Distribution
letterR Window in Shape of Letter R
objsurf Objective Function Surface
is.im Test Whether An Object Is A Pixel Image
intersect.owin Intersection, Union or Set Subtraction of Windows
is.multitype.ppm Test Whether A Point Process Model is Multitype
hybrid.family Hybrid Interaction Family
psst Pseudoscore Diagnostic For Fitted Model against General Alternative
plot.tess Plot a tessellation
nnwhich.pp3 Nearest neighbours in three dimensions
harmonic Basis for Harmonic Functions
mean.im Maximum, Minimum, Mean, Median, Range or Sum of Pixel Values in an Image
intersect.tess Intersection of Two Tessellations
is.empty Test Whether An Object Is Empty
layout.boxes Generate a Row or Column Arrangement of Rectangles.
im.apply Apply Function Pixelwise to List of Images
markstat Summarise Marks in Every Neighbourhood in a Point Pattern
japanesepines Japanese Pines Point Pattern
is.marked Test Whether Marks Are Present
latest.news Print News About Latest Version of Package
intensity Intensity of a Dataset or a Model
pairs.im Scatterplot Matrix for Pixel Images
methods.objsurf Methods for Objective Function Surfaces
intensity.ppm Intensity of Fitted Point Process Model
fv Create a Function Value Table
nbfires Point Patterns of New Brunswick Forest Fires
ippm Fit Point Process Model Involving Irregular Trend Parameters
methods.box3 Methods for Three-Dimensional Box
lineardisc Compute Disc of Given Radius in Linear Network
intensity.lpp Empirical Intensity of Point Pattern on Linear Network
linearpcfdot Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
methods.rhohat Methods for Intensity Functions of Spatial Covariate
intensity.quadratcount Intensity Estimates Using Quadrat Counts
crossdist.ppx Pairwise Distances Between Two Different Multi-Dimensional Point Patterns
methods.boxx Methods for Multi-Dimensional Box
dirichlet Dirichlet Tessellation of Point Pattern
is.ppp Test Whether An Object Is A Point Pattern
intensity.ppp Empirical Intensity of Point Pattern
distfun.lpp Distance Map on Linear Network
discs Union of Discs
invoke.symbolmap Plot Data Using Graphics Symbol Map
matclust.estpcf Fit the Matern Cluster Point Process by Minimum Contrast Using Pair Correlation
humberside Humberside Data on Childhood Leukaemia and Lymphoma
heather Diggle's Heather Data
longleaf Longleaf Pines Point Pattern
pixelquad Quadrature Scheme Based on Pixel Grid
linearpcf Linear Pair Correlation Function
linearmarkequal Mark Connection Function for Multitype Point Pattern on Linear Network
integral.msr Integral of a Measure
diameter.owin Diameter of a Window
interp.colourmap Interpolate smoothly between specified colours
plot.mppm plot a Fitted Multiple Point Process Model
nestsplit Nested Split
pool.fasp Pool Data from Several Function Arrays
methods.linfun Methods for Functions on Linear Network
osteo Osteocyte Lacunae Data: Replicated Three-Dimensional Point Patterns
mppm Fit Point Process Model to Several Point Patterns
interp.im Interpolate a Pixel Image
integral.im Integral of a Pixel Image
rMaternI Simulate Matern Model I
linearpcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
linearKdot Multitype K Function (Dot-type) for Linear Point Pattern
localKinhom Inhomogeneous Neighbourhood Density Function
linearpcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
pairwise.family Pairwise Interaction Process Family
nnorient Nearest Neighbour Orientation Distribution
plot.imlist Plot a List of Images
is.marked.ppp Test Whether A Point Pattern is Marked
dirichletAreas Compute Areas of Tiles in Dirichlet Tessellation
plot.lpp Plot Point Pattern on Linear Network
lengths.psp Lengths of Line Segments
pyramidal Pyramidal Neurons in Cingulate Cortex
methods.linnet Methods for Linear Networks
linearpcfcross Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
pairdist.psp Pairwise distances between line segments
levelset Level Set of a Pixel Image
idw Inverse-distance weighted smoothing of observations at irregular points
plot.layered Layered Plot
gridcentres Rectangular grid of points
kppm Fit Cluster or Cox Point Process Model
methods.fii Methods for Fitted Interactions
is.ppm Test Whether An Object Is A Fitted Point Process Model
npfun Dummy Function Returns Number of Points
methods.lpp Methods for Point Patterns on a Linear Network
pixellate.ppp Convert Point Pattern to Pixel Image
lppm Fit Point Process Model to Point Pattern on Linear Network
dummify Convert Data to Numeric Values by Constructing Dummy Variables
pcf.fasp Pair Correlation Function obtained from array of K functions
linearKcross.inhom Inhomogeneous multitype K Function (Cross-type) for Linear Point Pattern
formula.fv Extract or Change the Plot Formula for a Function Value Table
quadratcount Quadrat counting for a point pattern
perimeter Perimeter Length of Window
layerplotargs Extract or Replace the Plot Arguments of a Layered Object
plot.leverage.ppm Plot Leverage Function
maxnndist Compute Minimum or Maximum Nearest-Neighbour Distance
is.stationary Recognise Stationary and Poisson Point Process Models
methods.funxy Methods for Spatial Functions
pairdist.ppx Pairwise Distances in Any Dimensions
rpoislinetess Poisson Line Tessellation
nnclean Nearest Neighbour Clutter Removal
pixelcentres Extract Pixel Centres as Point Pattern
model.matrix.slrm Extract Design Matrix from Spatial Logistic Regression Model
pcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Type-i-To-Any-Type)
rPoissonCluster Simulate Poisson Cluster Process
perspPoints Draw Points or Lines on a Surface Viewed in Perspective
quadrat.test Dispersion Test for Spatial Point Pattern Based on Quadrat Counts
ppp Create a Point Pattern
nndist.pp3 Nearest neighbour distances in three dimensions
plot.envelope Plot a Simulation Envelope
nnmap K-th Nearest Point Map
midpoints.psp Midpoints of Line Segment Pattern
plot.anylist Plot a List of Things
marks.psp Marks of a Line Segment Pattern
rpoisppOnLines Generate Poisson Point Pattern on Line Segments
leverage.ppm Leverage Measure for Spatial Point Process Model
nnwhich.lpp Identify Nearest Neighbours on a Linear Network
nnwhich.ppx Nearest Neighbours in Any Dimensions
pcf.ppp Pair Correlation Function of Point Pattern
range.fv Range of Function Values
linim Create Pixel Image on Linear Network
unique.ppp Extract Unique Points from a Spatial Point Pattern
pixellate Convert Spatial Object to Pixel Image
methods.lppm Methods for Fitted Point Process Models on a Linear Network
nearest.raster.point Find Pixel Nearest to a Given Point
model.frame.ppm Extract the Variables in a Point Process Model
thomas.estK Fit the Thomas Point Process by Minimum Contrast
pcfinhom Inhomogeneous Pair Correlation Function
plot.kppm Plot a fitted cluster point process
plot.colourmap Plot a Colour Map
nearestsegment Find Line Segment Nearest to Each Point
nsegments Number of Line Segments in a Line Segment Pattern
nncross Nearest Neighbours Between Two Patterns
quadrats Divide Region into Quadrats
plot.onearrow Plot an Arrow
nncorr Nearest-Neighbour Correlation Indices of Marked Point Pattern
plot.ppp plot a Spatial Point Pattern
murchison Murchison gold deposits
plot.linim Plot Pixel Image on Linear Network
lansing Lansing Woods Point Pattern
runiflpp Uniform Random Points on a Linear Network
vesicles Vesicles Data
ppm.ppp Fit Point Process Model to Point Pattern Data
methods.linim Methods for Images on a Linear Network
plot.owin Plot a Spatial Window
pcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-Type)
padimage Pad the Border of a Pixel Image
pcfdot Multitype pair correlation function (i-to-any)
linearK Linear K Function
is.multitype.ppp Test Whether A Point Pattern is Multitype
marks.tess Marks of a Tessellation
nnwhich Nearest neighbour
plot.ppm plot a Fitted Point Process Model
plot.pp3 Plot a Three-Dimensional Point Pattern
rho2hat Smoothed Relative Density of Pairs of Covariate Values
plot.fv Plot Function Values
is.marked.ppm Test Whether A Point Process Model is Marked
reach Interaction Distance of a Point Process
pcfmulti Marked pair correlation function
plot.texturemap Plot a Texture Map
nztrees New Zealand Trees Point Pattern
methods.kppm Methods for Cluster Point Process Models
integral.linim Integral on a Linear Network
ripras Estimate window from points alone
plot.influence.ppm Plot Influence Measure
rCauchy Simulate Neyman-Scott Point Process with Cauchy cluster kernel
residuals.mppm Residuals for Point Process Model Fitted to Multiple Point Patterns
pool.fv Pool Several Functions
pcf Pair Correlation Function
matchingdist Distance for a Point Pattern Matching
methods.ppx Methods for Multidimensional Space-Time Point Patterns
rotate.owin Rotate a Window
panel.contour Panel Plots using Colour Image or Contour Lines
rknn Theoretical Distribution of Nearest Neighbour Distance
ppm.object Class of Fitted Point Process Models
predict.kppm Prediction from a Fitted Cluster Point Process Model
ppm Fit Point Process Model to Data
pairsat.family Saturated Pairwise Interaction Point Process Family
rmh Simulate point patterns using the Metropolis-Hastings algorithm.
parameters Extract Model Parameters in Understandable Form
project2set Find Nearest Point in a Region
rMaternII Simulate Matern Model II
logLik.mppm Log Likelihood for Poisson Point Process Model
simulate.kppm Simulate a Fitted Cluster Point Process Model
scaletointerval Rescale Data to Lie Between Specified Limits
rThomas Simulate Thomas Process
plot.msr Plot a Signed or Vector-Valued Measure
runifpointx Generate N Uniform Random Points in Any Dimensions
plot.quadratcount Plot Quadrat Counts
owin Create a Window
project2segment Move Point To Nearest Line
rmpoispp Generate Multitype Poisson Point Pattern
pixellate.owin Convert Window to Pixel Image
spokes Spokes pattern of dummy points
rGaussPoisson Simulate Gauss-Poisson Process
plot.bermantest Plot Result of Berman Test
plot.scan.test Plot Result of Scan Test
plot.plotppm Plot a plotppm Object Created by plot.ppm
plot.slrm Plot a Fitted Spatial Logistic Regression
methods.pp3 Methods for three-dimensional point patterns
rSSI Simulate Simple Sequential Inhibition
pool.rat Pool Data from Several Ratio Objects
npoints Number of Points in a Point Pattern
periodify Make Periodic Copies of a Spatial Pattern
miplot Morisita Index Plot
plot.linnet Plot a linear network
linearpcfinhom Inhomogeneous Linear Pair Correlation Function
rmhmodel Define Point Process Model for Metropolis-Hastings Simulation.
rounding Detect Numerical Rounding
whist Weighted Histogram
scanpp Read Point Pattern From Data File
rHardcore Perfect Simulation of the Hardcore Process
rpoispp Generate Poisson Point Pattern
rstrat Simulate Stratified Random Point Pattern
split.im Divide Image Into Sub-images
nndensity.ppp Estimate Intensity of Point Pattern Using Nearest Neighbour Distances
shift.psp Apply Vector Translation To Line Segment Pattern
rlinegrid Generate grid of parallel lines with random displacement
model.matrix.ppm Extract Design Matrix from Point Process Model
plot.lppm Plot a Fitted Point Process Model on a Linear Network
plot.fasp Plot a Function Array
runifdisc Generate N Uniform Random Points in a Disc
sharpen Data Sharpening of Point Pattern
plot.quad Plot a Spatial Quadrature Scheme
pool.envelope Pool Data from Several Envelopes
plot.yardstick Plot a Yardstick or Scale Bar
rhohat Smoothing Estimate of Covariate Transformation
logLik.kppm Log Likelihood and AIC for Fitted Cox or Cluster Point Process Model
psstA Pseudoscore Diagnostic For Fitted Model against Area-Interaction Alternative
pool.anylist Pool Data from a List of Objects
slrm Spatial Logistic Regression
simdat Simulated Point Pattern
pcfcross Multitype pair correlation function (cross-type)
sumouter Compute Quadratic Forms
unmark Remove Marks
pointsOnLines Place Points Evenly Along Specified Lines
quad.object Class of Quadrature Schemes
plot.hyperframe Plot Entries in a Hyperframe
psp.object Class of Line Segment Patterns
pool.quadrattest Pool Several Quadrat Tests
plot.listof Plot a List of Things
predict.mppm Prediction for Fitted Multiple Point Process Model
spiders Spider Webs on Mortar Lines of a Brick Wall
rpoisline Generate Poisson Random Line Process
rMatClust Simulate Matern Cluster Process
plot.quadrattest Display the result of a quadrat counting test.
quantile.ewcdf Quantiles of Weighted Empirical Cumulative Distribution Function
model.depends Identify Covariates Involved in each Model Term
qqplot.ppm Q-Q Plot of Residuals from Fitted Point Process Model
mucosa Cells in Gastric Mucosa
selfcut.psp Cut Line Segments Where They Intersect
persp.im Perspective Plot of Pixel Image
quadscheme Generate a Quadrature Scheme from a Point Pattern
ppx Multidimensional Space-Time Point Pattern
rDGS Perfect Simulation of the Diggle-Gates-Stibbard Process
predict.lppm Predict Point Process Model on Linear Network
reflect Reflect In Origin
simulate.slrm Simulate a Fitted Spatial Logistic Regression Model
waka Trees in Waka national park
solutionset Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True
rLGCP Simulate Log-Gaussian Cox Process
nnfun Nearest Neighbour Index Map as a Function
model.images Compute Images of Constructed Covariates
rescue.rectangle Convert Window Back To Rectangle
rshift.ppp Randomly Shift a Point Pattern
owin.object Class owin
spatstat-package The Spatstat Package
pool Pool Data
unnormdensity Weighted kernel smoother
shift.owin Apply Vector Translation To Window
subset.hyperframe Subset of Hyperframe Satisfying A Condition
sessionLibs Print Names and Version Numbers of Libraries Loaded
rpoisppx Generate Poisson Point Pattern in Any Dimensions
quantess Quantile Tessellation
psp Create a Line Segment Pattern
pppmatching Create a Point Matching
tiles Extract List of Tiles in a Tessellation
rVarGamma Simulate Neyman-Scott Point Process with Variance Gamma cluster kernel
lurking Lurking variable plot
rmh.ppm Simulate from a Fitted Point Process Model
nndist.lpp Nearest neighbour distances on a linear network
rMosaicField Mosaic Random Field
treebranchlabels Label Vertices of a Tree by Branch Membership
rotate.ppp Rotate a Point Pattern
redwood California Redwoods Point Pattern (Ripley's Subset)
nncross.lpp Nearest Neighbours on a Linear Network
simba Simulated data from a two-group experiment with replication within each group.
subfits Extract List of Individual Point Process Models
harmonise.owin Make Windows Compatible
vcov.ppm Variance-Covariance Matrix for a Fitted Point Process Model
nndist.ppx Nearest Neighbour Distances in Any Dimensions
pixellate.psp Convert Line Segment Pattern to Pixel Image
rStraussHard Perfect Simulation of the Strauss-Hardcore Process
quadrat.test.splitppp Dispersion Test of CSR for Split Point Pattern Based on Quadrat Counts
relrisk Estimate of Spatially-Varying Relative Risk
rshift.splitppp Randomly Shift a List of Point Patterns
rDiggleGratton Perfect Simulation of the Diggle-Gratton Process
reload.or.compute Compute Unless Previously Saved
quad.ppm Extract Quadrature Scheme Used to Fit a Point Process Model
rlabel Random Re-Labelling of Point Pattern
nncross.pp3 Nearest Neighbours Between Two Patterns in 3D
spatstat.options Internal Options in Spatstat Package
ppp.object Class of Point Patterns
residuals.ppm Residuals for Fitted Point Process Model
progressreport Print Progress Reports
split.ppx Divide Multidimensional Point Pattern into Sub-patterns
rmhmodel.list Define Point Process Model for Metropolis-Hastings Simulation.
rmhcontrol Set Control Parameters for Metropolis-Hastings Algorithm.
tweak.colourmap Change Colour Values in a Colour Map
plot.splitppp Plot a List of Point Patterns
summary.splitppp Summary of a Split Point Pattern
rpoint Generate N Random Points
segregation.test Test of Spatial Segregation of Types
run.simplepanel Run Point-and-Click Interface
plot.psp plot a Spatial Line Segment Pattern
pairdist.default Pairwise distances
timed Record the Computation Time
quadratresample Resample a Point Pattern by Resampling Quadrats
studpermu.test Studentised Permutation Test
rQuasi Generate Quasirandom Point Pattern in Given Window
predict.ppm Prediction from a Fitted Point Process Model
profilepl Profile Maximum Pseudolikelihood or AIC
unitname Name for Unit of Length
rcell Simulate Baddeley-Silverman Cell Process
raster.x Cartesian Coordinates for a Pixel Raster
round.ppp Apply Numerical Rounding to Spatial Coordinates
transect.im Pixel Values Along a Transect
relrisk.ppp Nonparametric Estimate of Spatially-Varying Relative Risk
relevel.im Reorder Levels of a Factor-Valued Image or Pattern
summary.quad Summarizing a Quadrature Scheme
setcov Set Covariance of a Window
residuals.kppm Residuals for Fitted Cox or Cluster Point Process Model
rthin Random Thinning
roc Receiver Operating Characteristic
rescale Convert dataset to another unit of length
parres Partial Residuals for Point Process Model
selfcrossing.psp Crossing Points in a Line Segment Pattern
rmhexpand Specify Simulation Window or Expansion Rule
pp3 Three Dimensional Point Pattern
runifpoint3 Generate N Uniform Random Points in Three Dimensions
moribund Outdated Functions
rStrauss Perfect Simulation of the Strauss Process
rmh.default Simulate Point Process Models using the Metropolis-Hastings Algorithm.
methods.layered Methods for Layered Objects
urkiola Urkiola Woods Point Pattern
summary.kppm Summarizing a Fitted Cox or Cluster Point Process Model
runifpoint Generate N Uniform Random Points
solapply Apply a Function Over a List and Obtain a List of Objects
rNeymanScott Simulate Neyman-Scott Process
shift Apply Vector Translation
subset.ppp Subset of Point Pattern Satisfying A Condition
logLik.ppm Log Likelihood and AIC for Point Process Model
triangulate.owin Decompose Window into Triangles
methods.slrm Methods for Spatial Logistic Regression Models
spatialcdf Spatial Cumulative Distribution Function
spruces Spruces Point Pattern
rmhmodel.ppm Interpret Fitted Model for Metropolis-Hastings Simulation.
ponderosa Ponderosa Pine Tree Point Pattern
print.im Print Brief Details of an Image
summary.im Summarizing a Pixel Image
shift.im Apply Vector Translation To Pixel Image
ord.family Ord Interaction Process Family
rescale.psp Convert Line Segment Pattern to Another Unit of Length
spatstat-internal Internal spatstat functions
swedishpines Swedish Pines Point Pattern
summary.owin Summary of a Spatial Window
sporophores Sporophores Data
update.symbolmap Update a Graphics Symbol Map.
rpoispp3 Generate Poisson Point Pattern in Three Dimensions
summary.listof Summary of a List of Things
print.owin Print Brief Details of a Spatial Window
print.ppm Print a Fitted Point Process Model
split.ppp Divide Point Pattern into Sub-patterns
pairdist.lpp Pairwise shortest-path distances between points on a linear network
quasirandom Quasirandom Patterns
shift.ppp Apply Vector Translation To Point Pattern
rose Rose Diagram
rotate.psp Rotate a Line Segment Pattern
plot.cdftest Plot a Spatial Distribution Test
psstG Pseudoscore Diagnostic For Fitted Model against Saturation Alternative
scan.test Spatial Scan Test
matclust.estK Fit the Matern Cluster Point Process by Minimum Contrast
rotmean Rotational Average of a Pixel Image
simplenet Simple Example of Linear Network
superimpose Superimpose Several Geometric Patterns
mincontrast Method of Minimum Contrast
markconnect Mark Connection Function
print.quad Print a Quadrature Scheme
pairdist.ppp Pairwise distances
rotate Rotate
thomas.estpcf Fit the Thomas Point Process by Minimum Contrast
treeprune Prune Tree to Given Level
update.rmhcontrol Update Control Parameters of Metropolis-Hastings Algorithm
reduced.sample Reduced Sample Estimator using Histogram Data
triplet.family Triplet Interaction Family
rpoislpp Poisson Point Process on a Linear Network
summary.psp Summary of a Line Segment Pattern Dataset
rjitter Random Perturbation of a Point Pattern
rshift Random Shift
pppmatching.object Class of Point Matchings
rnoise Random Pixel Noise
shapley Galaxies in the Shapley Supercluster
varblock Estimate Variance of Summary Statistic by Subdivision
rescale.owin Convert Window to Another Unit of Length
spatstat-deprecated Deprecated spatstat functions
rsyst Simulate systematic random point pattern
predict.slrm Predicted or Fitted Values from Spatial Logistic Regression
plot.symbolmap Plot a Graphics Symbol Map
vcov.kppm Variance-Covariance Matrix for a Fitted Cluster Point Process Model
sidelengths.owin Side Lengths of Enclosing Rectangle of a Window
rmhstart Determine Initial State for Metropolis-Hastings Simulation.
waterstriders Waterstriders data. Three independent replications of a point pattern formed by insects.
symbolmap Graphics Symbol Map
with.msr Evaluate Expression Involving Components of a Measure
rmhmodel.default Build Point Process Model for Metropolis-Hastings Simulation.
lpp Create Point Pattern on Linear Network
print.psp Print Brief Details of a Line Segment Pattern Dataset
volume Volume of an Object
rmpoint Generate N Random Multitype Points
rMosaicSet Mosaic Random Set
density.lpp Kernel Estimate of Intensity on a Linear Network
quadscheme.logi Generate a Logistic Regression Quadrature Scheme from a Point Pattern
hopskel Hopkins-Skellam Test
rescale.im Convert Pixel Image to Another Unit of Length
simulate.ppm Simulate a Fitted Gibbs Point Process Model
pairorient Point Pair Orientation Distribution
plot.im Plot a Pixel Image
runifpointOnLines Generate N Uniform Random Points On Line Segments
scalardilate Apply Scalar Dilation
yardstick Text, Arrow or Scale Bar in a Diagram
rgbim Create Colour-Valued Pixel Image
pcf3est Pair Correlation Function of a Three-Dimensional Point Pattern
edit.ppp Invoke Text Editor on Spatial Data
foo Foo is Not a Real Name
with.hyperframe Evaluate an Expression in Each Row of a Hyperframe
solist List of Two-Dimensional Spatial Objects
plot.textstring Plot a Text String
pppdist Distance Between Two Point Patterns
scanLRTS Likelihood Ratio Test Statistic for Scan Test
square Square Window
simplify.owin Approximate a Polygon by a Simpler Polygon
rat Ratio object
split.hyperframe Divide Hyperframe Into Subsets and Reassemble
eroded.areas Areas of Morphological Erosions
stienen Stienen Diagram
update.ppm Update a Fitted Point Process Model
project.ppm Force Point Process Model to be Valid
stieltjes Compute Integral of Function Against Cumulative Distribution
superimpose.lpp Superimpose Several Point Patterns on Linear Network
summary.solist Summary of a List of Spatial Objects
update.kppm Update a Fitted Cluster Point Process Model
simulate.lppm Simulate a Fitted Point Process Model on a Linear Network
summary.anylist Summary of a List of Things
stratrand Stratified random point pattern
valid.ppm Check Whether Point Process Model is Valid
summary.ppp Summary of a Point Pattern Dataset
vargamma.estpcf Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
tess Create a Tessellation
suffstat Sufficient Statistic of Point Process Model
summary.ppm Summarizing a Fitted Point Process Model
rcellnumber Generate Random Numbers of Points for Cell Process
trim.rectangle Cut margins from rectangle
will.expand Test Expansion Rule
relrisk.ppm Parametric Estimate of Spatially-Varying Relative Risk
vertices Vertices of a Window
residualspaper Data and Code From JRSS Discussion Paper on Residuals
tilenames Names of Tiles in a Tessellation
rescale.ppp Convert Point Pattern to Another Unit of Length
quantile.im Sample Quantiles of Pixel Image
zapsmall.im Rounding of Pixel Values
print.ppp Print Brief Details of a Point Pattern Dataset
quadrat.test.mppm Chi-Squared Test for Multiple Point Process Model Based on Quadrat Counts
rshift.psp Randomly Shift a Line Segment Pattern
simplepanel Simple Point-and-Click Interface Panels
texturemap Texture Map
vargamma.estK Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
tile.areas Compute Areas of Tiles in a Tessellation
textureplot Plot Image or Tessellation Using Texture Fill
rotate.im Rotate a Pixel Image
union.quad Union of Data and Dummy Points
transmat Convert Pixel Array Between Different Conventions
edge.Trans Translation Edge Correction
opening Morphological Opening
vcov.mppm Calculate Variance-Covariance Matrix for Fitted Multiple Point Process Model
with.fv Evaluate an Expression in a Function Table
vcov.slrm Variance-Covariance Matrix for a Fitted Spatial Logistic Regression
mergeLevels Merge Levels of a Factor
redwoodfull California Redwoods Point Pattern (Entire Dataset)
duplicated.ppp Determine Duplicated Points in a Spatial Point Pattern
dclf.test Diggle-Cressie-Loosmore-Ford and Maximum Absolute Deviation Tests
linearKdot.inhom Inhomogeneous multitype K Function (Dot-type) for Linear Point Pattern
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Nickname Barking at Balloons
Date 2015-06-28
License GPL (>= 2)
URL http://www.spatstat.org
LazyData true
NeedsCompilation yes
ByteCompile true
Packaged 2015-06-28 16:25:57 UTC; adrian
Repository CRAN
Date/Publication 2015-06-29 07:38:54
imports abind , deldir (>= 0.0-21) , goftest , Matrix , mgcv , polyclip (>= 1.3-0) , tensor
depends base (>= 3.2.0) , graphics , grDevices , methods , R (>= 3.2.0) , stats , utils
suggests gsl , locfit , maptools , RandomFields (>= 3.0.0) , rpanel , sm , spatial , tkrplot
Contributors Rolf Turner, Adrian Baddeley, Ege Rubak

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