spatstat v1.12-7
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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 | |
| crossdist.default | Pairwise distances between two different sets of points | |
| eval.fv | Evaluate Expression Involving Functions | |
| Kdot | Multitype K Function (i-to-any) | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| Kcross | Multitype K Function (Cross-type) | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| Saturated | Saturated Pairwise Interaction model | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| as.im | Convert to Pixel Image | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| as.mask | Pixel Image Approximation of a Window | |
| corners | Corners of a rectangle | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| anemones | Beadlet Anemones Data | |
| Jcross | Multitype J Function (i-to-j) | |
| Linhom | L-function | |
| plot.ppm | plot a Fitted Point Process Model | |
| Gest | Nearest Neighbour Distance Function G | |
| Fest | Estimate the empty space function F | |
| AreaInter | The Area Interaction Point Process Model | |
| Geyer | Geyer's Saturation Point Process Model | |
| inside.owin | Test Whether Points Are Inside A Window | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| rpoisline | Generate Poisson Random Line Process | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| ants | Harkness-Isham ants' nests data | |
| marktable | Tabulate Marks in Neighbourhood of Every Point in a Point Pattern | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| plot.owin | Plot a Spatial Window | |
| plot.hyperframe | Plot Entries in a Hyperframe | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| Kinhom | Inhomogeneous K-function | |
| cells | Biological Cells Point Pattern | |
| pairdist.ppp | Pairwise distances | |
| copper | Berman-Huntington points and lines data | |
| rMaternI | Simulate Matern Model I | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| areadiff | Difference of Disc Areas | |
| markcorr | Mark Correlation Function | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| eroded.areas | Areas of Morphological Erosions | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| kstest.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| mean.im | Mean Pixel Value in an Image | |
| as.owin | Convert Data To Class owin | |
| affine.owin | Apply Affine Transformation To Window | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| LennardJones | The Lennard-Jones Potential | |
| as.psp | Convert Data To Class psp | |
| lansing | Lansing Woods Point Pattern | |
| bounding.box.xy | Convex Hull of Points | |
| centroid.owin | Centroid of a window | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| Kmeasure | Reduced Second Moment Measure | |
| amacrine | Hughes' Amacrine Cell Data | |
| Jdot | Multitype J Function (i-to-any) | |
| lurking | Lurking variable plot | |
| simdat | Simulated Point Pattern | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| harmonic | Basis for Harmonic Functions | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| crossdist | Pairwise distances | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| plot.fasp | Plot a Function Array | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| psp.object | Class of Line Segment Patterns | |
| nztrees | New Zealand Trees Point Pattern | |
| intersect.owin | Intersection or Union of Two Windows | |
| is.owin | Test Whether An Object Is A Window | |
| print.owin | Print Brief Details of a Spatial Window | |
| rSSI | Simulate Simple Sequential Inhibition | |
| pairwise.family | Pairwise Interaction Process Family | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| spatstat-internal | Internal spatstat functions | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| ppm.object | Class of Fitted Point Process Models | |
| print.im | Print Brief Details of an Image | |
| im.object | Class of Images | |
| rsyst | Simulate systematic random point pattern | |
| area.owin | Area of a Window | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| ripras | Estimate window from points alone | |
| eem | Exponential Energy Marks | |
| pppmatching | Create a Point Matching | |
| hist.im | Histogram of Pixel Values in an Image | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| Jest | Estimate the J-function | |
| owin | Create a Window | |
| rlabel | Random Re-Labelling of Point Pattern | |
| reach | Interaction Distance of a Point Process | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| Poisson | Poisson Point Process Model | |
| rGaussPoisson | Simulate Gauss-Poisson Process | |
| bei | Tropical rain forest trees | |
| Iest | Estimate the I-function | |
| dilate.owin | Dilate a Window | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| quadratcount | Quadrat counting for a point pattern | |
| rpoispp | Generate Poisson Point Pattern | |
| lengths.psp | Lengths of Line Segments | |
| print.ppm | Print a Fitted Point Process Model | |
| quantile.im | Sample Quantiles of Pixel Image | |
| Lest | L-function | |
| summary.listof | Summary of a List of Things | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| plot.fv | Plot Function Valuesn | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| summary.im | Summarizing a Pixel Image | |
| fasp.object | Function Arrays for Spatial Patterns | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| plot.listof | Plot a List of Things | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| interp.im | Interpolate a Pixel Image | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| subset.fv | Extract Subset of Function Values | |
| spatstat.options | Internal Options in Spatstat Package | |
| distmap.owin | Distance Map of Window | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| ppp.object | Class of Point Patterns | |
| OrdThresh | Ord's Interaction model | |
| summary.quad | Summarizing a Quadrature Scheme | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| convexhull.xy | Convex Hull of Points | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| expand.owin | Expand Window By Factor | |
| bdist.points | Distance to Boundary of Window | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| inforder.family | Infinite Order Interaction Family | |
| rlinegrid | Generate grid of parallel lines with random displacement | |
| pcf | Pair Correlation Function | |
| ponderosa | Ponderosa Pine Tree Point Pattern | |
| rMaternII | Simulate Matern Model II | |
| setcov | Set Covariance of a Window | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| superimpose | Superimpose Several Point Patterns | |
| mincontrast | Method of Minimum Contrast | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| hyperframe | Hyper Data Frame | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| hamster | Aherne's hamster tumour data | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| DiggleGratton | Diggle-Gratton model | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| pppmatching.object | Class of Point Matchings | |
| demopat | Artificial Data Point Pattern | |
| letterR | Window in Shape of Letter R | |
| localK | Neighbourhood density function | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| psp | Create a Line Segment Pattern | |
| complement.owin | Take Complement of a Window | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| distmap.ppp | Distance Map of Point Pattern | |
| bdist.pixels | Distance to Boundary of Window | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| ppp | Create a Point Pattern | |
| rotate | Rotate | |
| union.quad | Union of Data and Dummy Points | |
| pppdist | Distance Between Two Point Patterns | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| spatstat | The Spatstat Package | |
| progressreport | Print Progress Reports | |
| clickppp | Interactively Add Points | |
| is.marked | Test Whether Marks Are Present | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| longleaf | Longleaf Pines Point Pattern | |
| nndist.psp | Nearest neighbour distances between line segments | |
| is.im | Test Whether An Object Is A Pixel Image | |
| affine | Apply Affine Transformation | |
| quad.object | Class of Quadrature Schemes | |
| erode.owin | Erode a Window | |
| rescale.owin | Convert Window to Another Unit of Length | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| Ord | Generic Ord Interaction model | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| as.data.frame.ppp | Coerce Point Pattern to a Data Frame | |
| plot.ppp | plot a Spatial Point Pattern | |
| angles.psp | Orientation Angles of Line Segments | |
| rshift | Random Shift | |
| contour.im | Contour plot of pixel image | |
| subset.im | Extract Subset of Image | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| as.ppp | Convert Data To Class ppp | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| swedishpines | Swedish Pines Point Pattern | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| trim.rectangle | Cut margins from rectangle | |
| rotate.owin | Rotate a Window | |
| japanesepines | Japanese Pines Point Pattern | |
| summary.splitppp | Summary of a Split Point Pattern | |
| eval.hyper | Evaluate an Expression in Each Row of a Hyperframe | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| plot.im | Plot a Pixel Image | |
| plot.splitppp | Plot a List of Point Patterns | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| shift | Apply Vector Translation | |
| unmark | Remove Marks from a Marked Point Pattern | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| shift.owin | Apply Vector Translation To Window | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| vertices | Vertices of a Window | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| unitname | Name for Unit of Length | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| subset.fasp | Extract Subset of Function Array | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| clickpoly | Interactively Define a Polygon | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| Kest.fft | K-function using FFT | |
| matchingdist | Distance for a Point Pattern Matching | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| rotate.psp | Rotate a Line Segment Pattern | |
| print.quad | Print a Quadrature Scheme | |
| rthin | Random Thinning | |
| shift.im | Apply Vector Translation To Pixel Image | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| scanpp | Read Point Pattern From Data File | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| discretise | Safely Convert Point Pattern Window to Binary Mask | |
| Jmulti | Marked J Function | |
| suffstat | Sufficient Statistic of Point Process Model | |
| rThomas | Simulate Thomas Process | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| finpines | Pine saplings in Finland. | |
| rmpoint | Generate N Random Multitype Points | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| persp.im | Perspective Plot of Pixel Image | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| Pairwise | Generic Pairwise Interaction model | |
| spruces | Spruces Point Pattern | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| spatstat-deprecated | Deprecated spatstat functions | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| append.psp | Combine Two Line Segment Patterns | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| rpoint | Generate N Random Points | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| profilepl | Profile Maximum Pseudolikelihood | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| diameter | Diameter of a Window | |
| Softcore | The Soft Core Point Process Model | |
| Strauss | The Strauss Point Process Model | |
| update.ppm | Update a Fitted Point Process Model | |
| fv.object | Data Frames of Function Values | |
| bramblecanes | Hutchings' Bramble Canes data | |
| chorley | Chorley-Ribble Cancer Data | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| as.rectangle | Window Frame | |
| subsetget.im | Reset Values in Subset of Image | |
| distmap | Distance Map | |
| owin.object | Class owin | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| nnwhich | Nearest neighbour | |
| envelope | Simulation envelopes of summary function | |
| summary.owin | Summary of a Spatial Window | |
| rstrat | Simulate Stratified Random Point Pattern | |
| rMatClust | Simulate Matern Cluster Process | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| spokes | Spokes pattern of dummy points | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| Kest | K-function | |
| clarkevans | Clark and Evans Aggregation Index | |
| logLik.ppm | Log Likelihood for Poisson Point Process Model | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| nndist | Nearest neighbour distances | |
| pairdist.psp | Pairwise distances between line segments | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| is.multitype | Test whether Object is Multitype | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| pairdist | Pairwise distances | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| ppm | Fit Point Process Model to Data | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| smooth.ppp | Spatial smoothing of observations at irregular points | |
| runifpoint | Generate N Uniform Random Points | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| rescale | Convert dataset to another unit of length | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| square | Square Window | |
| rotate.ppp | Rotate a Point Pattern | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| Kmulti | Marked K-Function | |
| disc | Circular Window | |
| im | Create a Pixel Image Object | |
| identify.ppp | Identify Points in a Point Pattern | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| levelset | Level Set of a Pixel Image | |
| ord.family | Ord Interaction Process Family | |
| pairdist.default | Pairwise distances | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| gridcentres | Rectangular grid of points | |
| No Results! | ||
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Details
| Date | 11 February 2008 |
| License | GPL (>= 2) |
| URL | http://www.spatstat.org |
| Packaged | Tue Feb 12 00:14:29 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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