spatstat v1.15-1
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Spatial Point Pattern analysis, model-fitting, simulation, tests
A package for analysing spatial data, mainly Spatial Point
Patterns, including multitype/marked points and spatial
covariates, in any two-dimensional spatial region. Contains
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, and pixel images. Point
process models can be fitted to point pattern data. Cluster
type models are fitted by the method of minimum contrast. Very
general Gibbs point process models can be fitted to point
pattern data using a function ppm similar to lm or glm. Models
may include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated
automatically. Also provides facilities for formal inference
(such as chi-squared tests) and model diagnostics (including
simulation envelopes, residuals, residual plots and Q-Q plots).
Functions in spatstat
| Name | Description | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| closing.owin | Morphological Closing of a Window | |
| cut.ppp | Classify Points in a Point Pattern | |
| expand.owin | Expand Window By Factor | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| spatstat-internal | Internal spatstat functions | |
| lurking | Lurking variable plot | |
| convexhull.xy | Convex Hull of Points | |
| erode.owin | Erode a Window | |
| eval.fv | Evaluate Expression Involving Functions | |
| plot.im | Plot a Pixel Image | |
| Fest | Estimate the empty space function F | |
| Kest.fft | K-function using FFT | |
| bei | Tropical rain forest trees | |
| Ldot | Multitype L-function (i-to-any) | |
| matchingdist | Distance for a Point Pattern Matching | |
| nztrees | New Zealand Trees Point Pattern | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| BadGey | Hybrid Geyer Point Process Model | |
| plot.listof | Plot a List of Things | |
| ppp.object | Class of Point Patterns | |
| Jcross | Multitype J Function (i-to-j) | |
| inside.owin | Test Whether Points Are Inside A Window | |
| Jest | Estimate the J-function | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| pcf | Pair Correlation Function | |
| pcfcross | Multitype pair correlation function | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| pixelquad | Quadrature Scheme Based on Pixel Grid | |
| rjitter | Random Perturbation of a Point Pattern | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| owin | Create a Window | |
| angles.psp | Orientation Angles of Line Segments | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| Kdot | Multitype K Function (i-to-any) | |
| AreaInter | The Area Interaction Point Process Model | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| pppmatching.object | Class of Point Matchings | |
| project2segment | Move Point To Nearest Line | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| pppmatching | Create a Point Matching | |
| Iest | Estimate the I-function | |
| fryplot | Fry Plot of Point Pattern | |
| Ord | Generic Ord Interaction model | |
| bramblecanes | Hutchings' Bramble Canes data | |
| eroded.areas | Areas of Morphological Erosions | |
| contour.im | Contour plot of pixel image | |
| ants | Harkness-Isham ants' nests data | |
| as.data.frame.ppp | Coerce Point Pattern to a Data Frame | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| area.owin | Area of a Window | |
| as.psp | Convert Data To Class psp | |
| SatPiece | Piecewise Constant Saturated Pairwise Interaction Point Process Model | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| clickpoly | Interactively Define a Polygon | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| diameter | Diameter of a Window | |
| cells | Biological Cells Point Pattern | |
| spatstat | The Spatstat Package | |
| eval.fasp | Evaluate Expression Involving Function Arrays | |
| Poisson | Poisson Point Process Model | |
| Kcross | Multitype K Function (Cross-type) | |
| Jmulti | Marked J Function | |
| as.owin | Convert Data To Class owin | |
| Linhom | L-function | |
| is.im | Test Whether An Object Is A Pixel Image | |
| anemones | Beadlet Anemones Data | |
| pairdist.default | Pairwise distances | |
| as.mask | Pixel Image Approximation of a Window | |
| complement.owin | Take Complement of a Window | |
| dirichlet | Dirichlet Tessellation of Point Pattern | |
| affine | Apply Affine Transformation | |
| compatible.fasp | Test Whether Two Function Arrays Are Compatible | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| plot.ppm | plot a Fitted Point Process Model | |
| Strauss | The Strauss Point Process Model | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| incircle | Find Largest Circle Inside Window | |
| rescale.owin | Convert Window to Another Unit of Length | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| heather | Diggle's Heather Data | |
| copper | Berman-Huntington points and lines data | |
| rpoispp | Generate Poisson Point Pattern | |
| Geyer | Geyer's Saturation Point Process Model | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| union.quad | Union of Data and Dummy Points | |
| nndist.psp | Nearest neighbour distances between line segments | |
| model.matrix.ppm | Extract Design Matrix from Point Process Model | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| interp.im | Interpolate a Pixel Image | |
| markcorr | Mark Correlation Function | |
| delaunay | Delaunay Triangulation of Point Pattern | |
| summary.im | Summarizing a Pixel Image | |
| Kest | K-function | |
| intersect.owin | Intersection or Union of Two Windows | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| areadiff | Difference of Disc Areas | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| adaptive.density | Intensity Estimate of Point Pattern Using Tessellation | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| effectfun | Compute Fitted Effect of a Spatial Covariate in a Point Process Model | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| [.quad | Subset of Quadrature Scheme | |
| affine.owin | Apply Affine Transformation To Window | |
| crossdist | Pairwise distances | |
| hamster | Aherne's hamster tumour data | |
| corners | Corners of a rectangle | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| chorley | Chorley-Ribble Cancer Data | |
| DiggleGratton | Diggle-Gratton model | |
| distmap.ppp | Distance Map of Point Pattern | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| harmonic | Basis for Harmonic Functions | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| fasp.object | Function Arrays for Spatial Patterns | |
| discretise | Safely Convert Point Pattern Window to Binary Mask | |
| demopat | Artificial Data Point Pattern | |
| persp.im | Perspective Plot of Pixel Image | |
| dilate.owin | Dilate a Window | |
| opening.owin | Morphological Opening of a Window | |
| levelset | Level Set of a Pixel Image | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| japanesepines | Japanese Pines Point Pattern | |
| plot.fv | Plot Function Valuesn | |
| scanpp | Read Point Pattern From Data File | |
| rlabel | Random Re-Labelling of Point Pattern | |
| im | Create a Pixel Image Object | |
| Lcross | Multitype L-function (cross-type) | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| pairdist | Pairwise distances | |
| profilepl | Profile Maximum Pseudolikelihood | |
| rotate.psp | Rotate a Line Segment Pattern | |
| plot.ppp | plot a Spatial Point Pattern | |
| marktable | Tabulate Marks in Neighbourhood of Every Point in a Point Pattern | |
| reach | Interaction Distance of a Point Process | |
| eval.hyper | Evaluate an Expression in Each Row of a Hyperframe | |
| pixellate | Convert Point Pattern to Pixel Image | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| intersect.tess | Intersection of Two Tessellations | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| quadrat.test.splitppp | Chi-Squared Test of CSR for Split Point Pattern | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| Kinhom | Inhomogeneous K-function | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| rpoisline | Generate Poisson Random Line Process | |
| ord.family | Ord Interaction Process Family | |
| ponderosa | Ponderosa Pine Tree Point Pattern | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| ppm.object | Class of Fitted Point Process Models | |
| as.rectangle | Window Frame | |
| square | Square Window | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| kppm | Fit cluster point process model | |
| predict.kppm | Prediction from a Fitted Cluster Point Process Model | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| bounding.box.xy | Convex Hull of Points | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| colourmap | Colour Lookup Tables | |
| rsyst | Simulate systematic random point pattern | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| inforder.family | Infinite Order Interaction Family | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| swedishpines | Swedish Pines Point Pattern | |
| im.object | Class of Images | |
| Saturated | Saturated Pairwise Interaction model | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| by.im | Apply Function to Image Broken Down by Factor | |
| Jdot | Multitype J Function (i-to-any) | |
| lengths.psp | Lengths of Line Segments | |
| pairdist.psp | Pairwise distances between line segments | |
| miplot | Morishita Index Plot | |
| clarkevans | Clark and Evans Aggregation Index | |
| rMatClust | Simulate Matern Cluster Process | |
| plot.fasp | Plot a Function Array | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| rGaussPoisson | Simulate Gauss-Poisson Process | |
| Hest | Spherical Contact Distribution Function | |
| LennardJones | The Lennard-Jones Potential | |
| clickppp | Interactively Add Points | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| amacrine | Hughes' Amacrine Cell Data | |
| distmap.owin | Distance Map of Window | |
| by.ppp | Apply a Function to a Point Pattern Broken Down by Factor | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| bdist.points | Distance to Boundary of Window | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| rescale.im | Convert Pixel Image to Another Unit of Length | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| tess | Create a Tessellation | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| vertices | Vertices of a Window | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| distmap | Distance Map | |
| plot.hyperframe | Plot Entries in a Hyperframe | |
| is.owin | Test Whether An Object Is A Window | |
| gridcentres | Rectangular grid of points | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| pairdist.ppp | Pairwise distances | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| spruces | Spruces Point Pattern | |
| fv.object | Data Frames of Function Values | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| stieltjes | Compute Integral of Function Against Cumulative Distribution | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| envelope | Simulation envelopes of summary function | |
| identify.ppp | Identify Points in a Point Pattern | |
| spatstat-deprecated | Deprecated spatstat functions | |
| longleaf | Longleaf Pines Point Pattern | |
| logLik.ppm | Log Likelihood for Poisson Point Process Model | |
| subsetget.im | Reset Values in Subset of Image | |
| psp.object | Class of Line Segment Patterns | |
| rthin | Random Thinning | |
| rotate.owin | Rotate a Window | |
| mincontrast | Method of Minimum Contrast | |
| plot.kppm | Plot a fitted cluster point process | |
| model.images | Compute Images of Constructed Covariates | |
| kstest.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| rpoisppOnLines | Generate Poisson Point Pattern on Line Segments | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| setcov | Set Covariance of a Window | |
| subset.fv | Extract Subset of Function Values | |
| pppdist | Distance Between Two Point Patterns | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| shift | Apply Vector Translation | |
| ppm | Fit Point Process Model to Data | |
| Gest | Nearest Neighbour Distance Function G | |
| localK | Neighbourhood density function | |
| rotate.ppp | Rotate a Point Pattern | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| ripras | Estimate window from points alone | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| Softcore | The Soft Core Point Process Model | |
| rotate | Rotate | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| suffstat | Sufficient Statistic of Point Process Model | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| as.data.frame.psp | Coerce Line Segment Pattern to a Data Frame | |
| with.fv | Evaluate an Expression in a Function Table | |
| subset.im | Extract Subset of Image | |
| rstrat | Simulate Stratified Random Point Pattern | |
| Pairwise | Generic Pairwise Interaction model | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| runifpoint | Generate N Uniform Random Points | |
| simdat | Simulated Point Pattern | |
| ppp | Create a Point Pattern | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| Kmulti | Marked K-Function | |
| Lest | L-function | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| urkiola | Urkiola Woods Point Pattern | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| shift.im | Apply Vector Translation To Pixel Image | |
| rescale | Convert dataset to another unit of length | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| superimpose | Superimpose Several Point Patterns | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| print.owin | Print Brief Details of a Spatial Window | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| rmpoint | Generate N Random Multitype Points | |
| subset.fasp | Extract Subset of Function Array | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| murchison | Murchison gold deposits | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| alltypes | Calculate Summary Statistic for All Types in a Multitype Point Pattern | |
| plot.splitppp | Plot a List of Point Patterns | |
| rpoint | Generate N Random Points | |
| as.ppp | Convert Data To Class ppp | |
| rMaternII | Simulate Matern Model II | |
| print.ppm | Print a Fitted Point Process Model | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| as.im | Convert to Pixel Image | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| pointsOnLines | Place Points Evenly Along Specified Lines | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| [.tess | Extract or Replace Subset of Tessellation | |
| runifpointOnLines | Generate N Uniform Random Points On Line Segments | |
| update.kppm | Update a Fitted Cluster Point Process Model | |
| shift.owin | Apply Vector Translation To Window | |
| progressreport | Print Progress Reports | |
| tiles | Extract List of Tiles in a Tessellation | |
| centroid.owin | Centroid of a window | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| pairwise.family | Pairwise Interaction Process Family | |
| is.multitype | Test whether Object is Multitype | |
| plot.owin | Plot a Spatial Window | |
| smooth.ppp | Spatial smoothing of observations at irregular points | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| lansing | Lansing Woods Point Pattern | |
| rSSI | Simulate Simple Sequential Inhibition | |
| unitname | Name for Unit of Length | |
| owin.object | Class owin | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| split.im | Divide Image Into Sub-images | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| nearestsegment | Find Line Segment Nearest to Each Point | |
| rlinegrid | Generate grid of parallel lines with random displacement | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| blur | Apply Gaussian Blur to a Pixel Image | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| nndist | Nearest neighbour distances | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| spokes | Spokes pattern of dummy points | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| summary.owin | Summary of a Spatial Window | |
| print.im | Print Brief Details of an Image | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| print.quad | Print a Quadrature Scheme | |
| eem | Exponential Energy Marks | |
| lut | Lookup Tables | |
| quadrats | Divide Region into Quadrats | |
| quantile.im | Sample Quantiles of Pixel Image | |
| plot.tess | Plot a tessellation | |
| hyperframe | Hyper Data Frame | |
| unmark | Remove Marks | |
| plot.colourmap | Plot a Colour Map | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| rshift | Random Shift | |
| is.marked | Test Whether Marks Are Present | |
| superimposePSP | Superimpose Several Line Segment Patterns | |
| summary.listof | Summary of a List of Things | |
| gpc2owin | Convert Polygonal Region into Different Format | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| psp | Create a Line Segment Pattern | |
| as.tess | Convert Data To Tessellation | |
| simulate.kppm | Simulate a fitted cluster point process model. | |
| spatstat.options | Internal Options in Spatstat Package | |
| trim.rectangle | Cut margins from rectangle | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| quad.object | Class of Quadrature Schemes | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| finpines | Pine saplings in Finland. | |
| hist.im | Histogram of Pixel Values in an Image | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| nnwhich | Nearest neighbour | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| letterR | Window in Shape of Letter R | |
| quadratcount | Quadrat counting for a point pattern | |
| OrdThresh | Ord's Interaction model | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| rThomas | Simulate Thomas Process | |
| append.psp | Combine Two Line Segment Patterns | |
| crossdist.default | Pairwise distances between two different sets of points | |
| Kmeasure | Reduced Second Moment Measure | |
| quadratresample | Resample a Point Pattern by Resampling Quadrats | |
| summary.quad | Summarizing a Quadrature Scheme | |
| update.ppm | Update a Fitted Point Process Model | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| summary.splitppp | Summary of a Split Point Pattern | |
| disc | Circular Window | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| rMaternI | Simulate Matern Model I | |
| bdist.pixels | Distance to Boundary of Window | |
| mean.im | Mean, Median and Range of Pixel Values in an Image | |
| No Results! | ||
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Details
| Date | 31 March 2009 |
| License | GPL (>= 2) |
| URL | http://www.spatstat.org |
| Packaged | Wed Apr 1 16:05:39 2009; adrian |
| Repository | CRAN |
| Date/Publication | 2009-04-01 11:43:18 |
| depends | base (>= 2.7.0) , deldir (>= 0.0-7) , gpclib , graphics , mgcv , R (>= 2.7.0) , stats , utils |
| suggests | maptools , sm |
| Contributors | Rolf Turner, Adrian Baddeley |
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