spatstat v1.11-2
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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 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 | |
| suffstat | Sufficient Statistic of Point Process Model | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| im | Create a Pixel Image Object | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| spatstat | The Spatstat Package | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| Jmulti | Marked J Function | |
| lengths.psp | Lengths of Line Segments | |
| reach | Interaction Distance of a Point Process | |
| distmap | Distance Map | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| japanesepines | Japanese Pines Point Pattern | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| gridcentres | Rectangular grid of points | |
| diameter | Diameter of a Window | |
| ants | Harkness-Isham ants' nests data | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| Pairwise | Generic Pairwise Interaction model | |
| im.object | Class of Images | |
| eem | Exponential Energy Marks | |
| clickppp | Interactively Add Points | |
| is.owin | Test Whether An Object Is A Window | |
| is.im | Test Whether An Object Is A Pixel Image | |
| complement.owin | Take Complement of a Window | |
| plot.im | Plot a Pixel Image | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| as.mask | Pixel Image Approximation of a Window | |
| rescale.owin | Convert Window to Another Unit of Length | |
| superimpose | Superimpose Several Point Patterns | |
| profilepl | Profile Maximum Pseudolikelihood | |
| quadratcount | Quadrat counting for a point pattern | |
| ord.family | Ord Interaction Process Family | |
| Kmulti | Marked K-Function | |
| rshift | Random Shift | |
| Jcross | Multitype J Function (i-to-j) | |
| levelset | Level Set of a Pixel Image | |
| as.psp | Convert Data To Class psp | |
| centroid.owin | Centroid of a window | |
| copper | Berman-Huntington points and lines data | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| crossdist.default | Pairwise distances between two different sets of points | |
| spatstat-internal | Internal spatstat functions | |
| Jest | Estimate the J-function | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| Saturated | Saturated Pairwise Interaction model | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| plot.ppp | plot a Spatial Point Pattern | |
| affine | Apply Affine Transformation | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| rthin | Random Thinning | |
| eroded.areas | Areas of Morphological Erosions | |
| shift.im | Apply Vector Translation To Pixel Image | |
| crossdist | Pairwise distances | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| owin.object | Class owin | |
| Strauss | The Strauss Point Process Model | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| print.im | Print Brief Details of an Image | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| lansing | Lansing Woods Point Pattern | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| distmap.ppp | Distance Map of Point Pattern | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| rotate.psp | Rotate a Line Segment Pattern | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| fv.object | Data Frames of Function Values | |
| as.ppp | Convert Data To Class ppp | |
| hamster | Aherne's hamster tumour data | |
| convexhull.xy | Convex Hull of Points | |
| ppp.object | Class of Point Patterns | |
| distmap.owin | Distance Map of Window | |
| nztrees | New Zealand Trees Point Pattern | |
| anemones | Beadlet Anemones Data | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| rpoisline | Generate Poisson Random Line Process | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| mean.im | Mean Pixel Value in an Image | |
| ripras | Estimate window from points alone | |
| clickpoly | Interactively Define a Polygon | |
| append.psp | Combine Two Line Segment Patterns | |
| erode.owin | Erode a Window | |
| rotate | Rotate | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| longleaf | Longleaf Pines Point Pattern | |
| summary.splitppp | Summary of a Split Point Pattern | |
| pppdist | Optimal Match Between Two Point Patterns | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| simdat | Simulated Point Pattern | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| rMaternI | Simulate Matern Model I | |
| trim.rectangle | Cut margins from rectangle | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| psp.object | Class of Line Segment Patterns | |
| spokes | Spokes pattern of dummy points | |
| ppm.object | Class of Fitted Point Process Models | |
| rescale | Convert dataset to another unit of length | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| psp | Create a Line Segment Pattern | |
| Kcross | Multitype K Function (Cross-type) | |
| Jdot | Multitype J Function (i-to-any) | |
| Gest | Nearest Neighbour Distance Function G | |
| Kest.fft | K-function using FFT | |
| as.owin | Convert Data To Class owin | |
| cells | Biological Cells Point Pattern | |
| print.quad | Print a Quadrature Scheme | |
| shift.owin | Apply Vector Translation To Window | |
| subset.fv | Extract Subset of Function Values | |
| eval.fv | Evaluate Expression Involving Functions | |
| as.im | Convert to Pixel Image | |
| rpoint | Generate N Random Points | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| DiggleGratton | Diggle-Gratton model | |
| summary.quad | Summarizing a Quadrature Scheme | |
| Softcore | The Soft Core Point Process Model | |
| area.owin | Area of a Window | |
| scanpp | Read Point Pattern From Data File | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| Kest | K-function | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| letterR | Window in Shape of Letter R | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| chorley | Chorley-Ribble Cancer Data | |
| fasp.object | Function Arrays for Spatial Patterns | |
| hist.im | Histogram of Pixel Values in an Image | |
| inside.owin | Test Whether Points Are Inside A Window | |
| Kmeasure | Reduced Second Moment Measure | |
| amacrine | Hughes' Amacrine Cell Data | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| is.multitype | Test whether Object is Multitype | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| plot.splitppp | Plot a List of Point Patterns | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| shift | Apply Vector Translation | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| ppm | Fit Point Process Model to Data | |
| plot.listof | Plot a List of Things | |
| pairdist.default | Pairwise distances | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| print.ppm | Print a Fitted Point Process Model | |
| progressreport | Print Progress Reports | |
| contour.im | Contour plot of pixel image | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| update.ppm | Update a Fitted Point Process Model | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| rpoispp | Generate Poisson Point Pattern | |
| setcov | Set Covariance of a Window | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| rotate.owin | Rotate a Window | |
| owin | Create a Window | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| pairdist.psp | Pairwise distances between line segments | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| summary.im | Summarizing a Pixel Image | |
| Fest | Estimate the empty space function F | |
| rmpoint | Generate N Random Multitype Points | |
| plot.owin | Plot a Spatial Window | |
| OrdThresh | Ord's Interaction model | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| summary.owin | Summary of a Spatial Window | |
| spruces | Spruces Point Pattern | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| bei | Tropical rain forest trees | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| rotate.ppp | Rotate a Point Pattern | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| bramblecanes | Hutchings' Bramble Canes data | |
| harmonic | Basis for Harmonic Functions | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| rSSI | Simulate Simple Sequential Inhibition | |
| demopat | Artificial Data Point Pattern | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| square | Square Window | |
| LennardJones | The Lennard-Jones Potential | |
| unmark | Remove Marks from a Marked Point Pattern | |
| expand.owin | Expand Window By Factor | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| persp.im | Perspective Plot of Pixel Image | |
| spatstat.options | Internal Options in Spatstat Package | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| lurking | Lurking variable plot | |
| mincontrast | Method of Minimum Contrast | |
| disc | Circular Window | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| bounding.box.xy | Convex Hull of Points | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| bdist.pixels | Distance to Boundary of Window | |
| finpines | Pine saplings in Finland. | |
| intersect.owin | Intersection or Union of Two Windows | |
| print.owin | Print Brief Details of a Spatial Window | |
| rlabel | Random Re-Labelling of Point Pattern | |
| swedishpines | Swedish Pines Point Pattern | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| quad.object | Class of Quadrature Schemes | |
| subsetget.im | Reset Values in Subset of Image | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| Iest | Estimate the I-function | |
| bdist.points | Distance to Boundary of Window | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| is.marked | Test Whether Marks Are Present | |
| envelope | Simulation envelopes of summary function | |
| identify.ppp | Identify Points in a Point Pattern | |
| quantile.im | Sample Quantiles of Pixel Image | |
| spatstat-deprecated | Deprecated spatstat functions | |
| Kdot | Multitype K Function (i-to-any) | |
| markcorr | Mark Correlation Function | |
| ppp | Create a Point Pattern | |
| pairwise.family | Pairwise Interaction Process Family | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| affine.owin | Apply Affine Transformation To Window | |
| corners | Corners of a rectangle | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| ks.test.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| nndist | Nearest neighbour distances | |
| Geyer | Geyer's Saturation Point Process Model | |
| nnwhich | Nearest neighbour | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| subset.fasp | Extract Subset of Function Array | |
| summary.listof | Summary of a List of Things | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| Kinhom | Inhomogeneous K-function | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| plot.fv | Plot Function Valuesn | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| runifpoint | Generate N Uniform Random Points | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| plot.ppm | plot a Fitted Point Process Model | |
| rMatClust | Simulate Matern Cluster Process | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| as.rectangle | Window Frame | |
| rThomas | Simulate Thomas Process | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| Poisson | Poisson Point Process Model | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| pairdist | Pairwise distances | |
| pcf | Pair Correlation Function | |
| rsyst | Simulate systematic random point pattern | |
| plot.fasp | Plot a Function Array | |
| subset.im | Extract Subset of Image | |
| rstrat | Simulate Stratified Random Point Pattern | |
| vertices | Vertices of a Window | |
| rMaternII | Simulate Matern Model II | |
| dilate.owin | Dilate a Window | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| angles.psp | Orientation Angles of Line Segments | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| pairdist.ppp | Pairwise distances | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| Ord | Generic Ord Interaction model | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| union.quad | Union of Data and Dummy Points | |
| units | Name for Unit of Length | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| No Results! | ||
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Details
| Date | 10 March 2007 |
| License | GPL version 2 or newer |
| URL | http://www.spatstat.org |
| Packaged | Mon Mar 12 09:35:27 2007; adrian |
| depends | base (>= 2.2.0) , graphics , mgcv , R (>= 2.2.0) , stats |
| suggests | deldir , sm |
| Contributors | Rolf Turner, Adrian Baddeley |
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