spatstat v1.12-8
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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 | |
| fasp.object | Function Arrays for Spatial Patterns | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| plot.hyperframe | Plot Entries in a Hyperframe | |
| distmap | Distance Map | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| rotate.psp | Rotate a Line Segment Pattern | |
| eroded.areas | Areas of Morphological Erosions | |
| is.im | Test Whether An Object Is A Pixel Image | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| profilepl | Profile Maximum Pseudolikelihood | |
| demopat | Artificial Data Point Pattern | |
| matchingdist | Distance for a Point Pattern Matching | |
| pairdist.default | Pairwise distances | |
| spatstat-deprecated | Deprecated spatstat functions | |
| hyperframe | Hyper Data Frame | |
| plot.owin | Plot a Spatial Window | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| inforder.family | Infinite Order Interaction Family | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| intersect.owin | Intersection or Union of Two Windows | |
| lansing | Lansing Woods Point Pattern | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| finpines | Pine saplings in Finland. | |
| unmark | Remove Marks from a Marked Point Pattern | |
| dilate.owin | Dilate a Window | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| hist.im | Histogram of Pixel Values in an Image | |
| identify.ppp | Identify Points in a Point Pattern | |
| distmap.ppp | Distance Map of Point Pattern | |
| plot.im | Plot a Pixel Image | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| superimpose | Superimpose Several Point Patterns | |
| spatstat-internal | Internal spatstat functions | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| logLik.ppm | Log Likelihood for Poisson Point Process Model | |
| rThomas | Simulate Thomas Process | |
| marktable | Tabulate Marks in Neighbourhood of Every Point in a Point Pattern | |
| expand.owin | Expand Window By Factor | |
| crossdist | Pairwise distances | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| complement.owin | Take Complement of a Window | |
| suffstat | Sufficient Statistic of Point Process Model | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| persp.im | Perspective Plot of Pixel Image | |
| ppp.object | Class of Point Patterns | |
| interp.im | Interpolate a Pixel Image | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| plot.splitppp | Plot a List of Point Patterns | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| rGaussPoisson | Simulate Gauss-Poisson Process | |
| owin.object | Class owin | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| rpoisline | Generate Poisson Random Line Process | |
| update.ppm | Update a Fitted Point Process Model | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| pairwise.family | Pairwise Interaction Process Family | |
| nztrees | New Zealand Trees Point Pattern | |
| owin | Create a Window | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| pppmatching | Create a Point Matching | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| eval.fv | Evaluate Expression Involving Functions | |
| mincontrast | Method of Minimum Contrast | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| psp | Create a Line Segment Pattern | |
| rMaternII | Simulate Matern Model II | |
| hamster | Aherne's hamster tumour data | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| nnwhich | Nearest neighbour | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| lurking | Lurking variable plot | |
| corners | Corners of a rectangle | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| is.owin | Test Whether An Object Is A Window | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| print.owin | Print Brief Details of a Spatial Window | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| rshift | Random Shift | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| subsetget.im | Reset Values in Subset of Image | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| fv.object | Data Frames of Function Values | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| eem | Exponential Energy Marks | |
| contour.im | Contour plot of pixel image | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| plot.ppm | plot a Fitted Point Process Model | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| ppm.object | Class of Fitted Point Process Models | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| gridcentres | Rectangular grid of points | |
| pppdist | Distance Between Two Point Patterns | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| markcorr | Mark Correlation Function | |
| rstrat | Simulate Stratified Random Point Pattern | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| discretise | Safely Convert Point Pattern Window to Binary Mask | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| shift.im | Apply Vector Translation To Pixel Image | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| localK | Neighbourhood density function | |
| levelset | Level Set of a Pixel Image | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| distmap.owin | Distance Map of Window | |
| diameter | Diameter of a Window | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| quadratcount | Quadrat counting for a point pattern | |
| plot.ppp | plot a Spatial Point Pattern | |
| simdat | Simulated Point Pattern | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| im.object | Class of Images | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| mean.im | Mean Pixel Value in an Image | |
| convexhull.xy | Convex Hull of Points | |
| pairdist | Pairwise distances | |
| pairdist.psp | Pairwise distances between line segments | |
| letterR | Window in Shape of Letter R | |
| rotate.ppp | Rotate a Point Pattern | |
| summary.im | Summarizing a Pixel Image | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| japanesepines | Japanese Pines Point Pattern | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| setcov | Set Covariance of a Window | |
| print.im | Print Brief Details of an Image | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| plot.fasp | Plot a Function Array | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| rmpoint | Generate N Random Multitype Points | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| rotate.owin | Rotate a Window | |
| print.quad | Print a Quadrature Scheme | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| rpoispp | Generate Poisson Point Pattern | |
| pairdist.ppp | Pairwise distances | |
| spruces | Spruces Point Pattern | |
| quad.object | Class of Quadrature Schemes | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| rescale | Convert dataset to another unit of length | |
| shift.owin | Apply Vector Translation To Window | |
| ppp | Create a Point Pattern | |
| rlabel | Random Re-Labelling of Point Pattern | |
| harmonic | Basis for Harmonic Functions | |
| print.ppm | Print a Fitted Point Process Model | |
| erode.owin | Erode a Window | |
| scanpp | Read Point Pattern From Data File | |
| is.multitype | Test whether Object is Multitype | |
| rescale.owin | Convert Window to Another Unit of Length | |
| kstest.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| rMaternI | Simulate Matern Model I | |
| inside.owin | Test Whether Points Are Inside A Window | |
| pppmatching.object | Class of Point Matchings | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| envelope | Simulation envelopes of summary function | |
| rthin | Random Thinning | |
| subset.fasp | Extract Subset of Function Array | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| copper | Berman-Huntington points and lines data | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| nndist.psp | Nearest neighbour distances between line segments | |
| runifpoint | Generate N Uniform Random Points | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| rsyst | Simulate systematic random point pattern | |
| quantile.im | Sample Quantiles of Pixel Image | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| nndist | Nearest neighbour distances | |
| rpoint | Generate N Random Points | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| plot.listof | Plot a List of Things | |
| unitname | Name for Unit of Length | |
| subset.im | Extract Subset of Image | |
| psp.object | Class of Line Segment Patterns | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| as.owin | Convert Data To Class owin | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| OrdThresh | Ord's Interaction model | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| rMatClust | Simulate Matern Cluster Process | |
| crossdist.default | Pairwise distances between two different sets of points | |
| rSSI | Simulate Simple Sequential Inhibition | |
| ord.family | Ord Interaction Process Family | |
| shift | Apply Vector Translation | |
| trim.rectangle | Cut margins from rectangle | |
| Softcore | The Soft Core Point Process Model | |
| progressreport | Print Progress Reports | |
| smooth.ppp | Spatial smoothing of observations at irregular points | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| vertices | Vertices of a Window | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| Fest | Estimate the empty space function F | |
| DiggleGratton | Diggle-Gratton model | |
| Poisson | Poisson Point Process Model | |
| spokes | Spokes pattern of dummy points | |
| summary.owin | Summary of a Spatial Window | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| Geyer | Geyer's Saturation Point Process Model | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| as.ppp | Convert Data To Class ppp | |
| Lest | L-function | |
| subset.fv | Extract Subset of Function Values | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| as.psp | Convert Data To Class psp | |
| AreaInter | The Area Interaction Point Process Model | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| Ord | Generic Ord Interaction model | |
| bounding.box.xy | Convex Hull of Points | |
| anemones | Beadlet Anemones Data | |
| affine | Apply Affine Transformation | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| as.data.frame.ppp | Coerce Point Pattern to a Data Frame | |
| bramblecanes | Hutchings' Bramble Canes data | |
| clickpoly | Interactively Define a Polygon | |
| summary.quad | Summarizing a Quadrature Scheme | |
| Jest | Estimate the J-function | |
| angles.psp | Orientation Angles of Line Segments | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| as.im | Convert to Pixel Image | |
| Linhom | L-function | |
| append.psp | Combine Two Line Segment Patterns | |
| LennardJones | The Lennard-Jones Potential | |
| Kmulti | Marked K-Function | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| ppm | Fit Point Process Model to Data | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| Kmeasure | Reduced Second Moment Measure | |
| areadiff | Difference of Disc Areas | |
| affine.owin | Apply Affine Transformation To Window | |
| Jcross | Multitype J Function (i-to-j) | |
| as.mask | Pixel Image Approximation of a Window | |
| Kdot | Multitype K Function (i-to-any) | |
| centroid.owin | Centroid of a window | |
| amacrine | Hughes' Amacrine Cell Data | |
| cells | Biological Cells Point Pattern | |
| area.owin | Area of a Window | |
| swedishpines | Swedish Pines Point Pattern | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| Gest | Nearest Neighbour Distance Function G | |
| Kcross | Multitype K Function (Cross-type) | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| Pairwise | Generic Pairwise Interaction model | |
| union.quad | Union of Data and Dummy Points | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| Kest | K-function | |
| chorley | Chorley-Ribble Cancer Data | |
| Kest.fft | K-function using FFT | |
| as.rectangle | Window Frame | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| bdist.points | Distance to Boundary of Window | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| clarkevans | Clark and Evans Aggregation Index | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| bei | Tropical rain forest trees | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| Strauss | The Strauss Point Process Model | |
| Kinhom | Inhomogeneous K-function | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| disc | Circular Window | |
| ponderosa | Ponderosa Pine Tree Point Pattern | |
| longleaf | Longleaf Pines Point Pattern | |
| im | Create a Pixel Image Object | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| is.marked | Test Whether Marks Are Present | |
| plot.fv | Plot Function Valuesn | |
| reach | Interaction Distance of a Point Process | |
| rlinegrid | Generate grid of parallel lines with random displacement | |
| ripras | Estimate window from points alone | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| Saturated | Saturated Pairwise Interaction model | |
| Jmulti | Marked J Function | |
| Iest | Estimate the I-function | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| summary.listof | Summary of a List of Things | |
| square | Square Window | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| summary.splitppp | Summary of a Split Point Pattern | |
| Jdot | Multitype J Function (i-to-any) | |
| ants | Harkness-Isham ants' nests data | |
| bdist.pixels | Distance to Boundary of Window | |
| clickppp | Interactively Add Points | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| eval.hyper | Evaluate an Expression in Each Row of a Hyperframe | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| lengths.psp | Lengths of Line Segments | |
| pcf | Pair Correlation Function | |
| spatstat.options | Internal Options in Spatstat Package | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| rotate | Rotate | |
| spatstat | The Spatstat Package | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| No Results! | ||
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Details
| Date | 26 February 2008 |
| License | GPL (>= 2) |
| URL | http://www.spatstat.org |
| Packaged | Tue Feb 26 22:19:55 2008; adrian |
| depends | base (>= 2.6.0) , graphics , mgcv , R (>= 2.6.0) , stats |
| suggests | deldir , sm |
| Contributors | Rolf Turner, Adrian Baddeley |
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