spatstat v1.11-5
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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 | |
| Jmulti | Marked J Function | |
| Kcross | Multitype K Function (Cross-type) | |
| as.im | Convert to Pixel Image | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| OrdThresh | Ord's Interaction model | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| Gest | Nearest Neighbour Distance Function G | |
| nndist.psp | Nearest neighbour distances between line segments | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| mincontrast | Method of Minimum Contrast | |
| as.psp | Convert Data To Class psp | |
| disc | Circular Window | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| inside.owin | Test Whether Points Are Inside A Window | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| intersect.owin | Intersection or Union of Two Windows | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| ripras | Estimate window from points alone | |
| Softcore | The Soft Core Point Process Model | |
| ppp.object | Class of Point Patterns | |
| corners | Corners of a rectangle | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| clickppp | Interactively Add Points | |
| centroid.owin | Centroid of a window | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| plot.fasp | Plot a Function Array | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| amacrine | Hughes' Amacrine Cell Data | |
| reach | Interaction Distance of a Point Process | |
| append.psp | Combine Two Line Segment Patterns | |
| rpoint | Generate N Random Points | |
| area.owin | Area of a Window | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| Poisson | Poisson Point Process Model | |
| convexhull.xy | Convex Hull of Points | |
| print.im | Print Brief Details of an Image | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| bounding.box.xy | Convex Hull of Points | |
| Jest | Estimate the J-function | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| distmap.owin | Distance Map of Window | |
| subset.fasp | Extract Subset of Function Array | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| expand.owin | Expand Window By Factor | |
| demopat | Artificial Data Point Pattern | |
| identify.ppp | Identify Points in a Point Pattern | |
| eroded.areas | Areas of Morphological Erosions | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| Kinhom | Inhomogeneous K-function | |
| Fest | Estimate the empty space function F | |
| Saturated | Saturated Pairwise Interaction model | |
| affine | Apply Affine Transformation | |
| distmap | Distance Map | |
| bramblecanes | Hutchings' Bramble Canes data | |
| Kmulti | Marked K-Function | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| Kdot | Multitype K Function (i-to-any) | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| spatstat | The Spatstat Package | |
| as.mask | Pixel Image Approximation of a Window | |
| crossdist.default | Pairwise distances between two different sets of points | |
| ants | Harkness-Isham ants' nests data | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| spatstat-deprecated | Deprecated spatstat functions | |
| is.im | Test Whether An Object Is A Pixel Image | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| complement.owin | Take Complement of a Window | |
| is.marked | Test Whether Marks Are Present | |
| as.ppp | Convert Data To Class ppp | |
| longleaf | Longleaf Pines Point Pattern | |
| rsyst | Simulate systematic random point pattern | |
| DiggleGratton | Diggle-Gratton model | |
| is.multitype | Test whether Object is Multitype | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| ppp | Create a Point Pattern | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| LennardJones | The Lennard-Jones Potential | |
| print.owin | Print Brief Details of a Spatial Window | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| bdist.points | Distance to Boundary of Window | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| dilate.owin | Dilate a Window | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| owin | Create a Window | |
| spatstat-internal | Internal spatstat functions | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| nnwhich | Nearest neighbour | |
| profilepl | Profile Maximum Pseudolikelihood | |
| japanesepines | Japanese Pines Point Pattern | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| is.owin | Test Whether An Object Is A Window | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| ks.test.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| Jcross | Multitype J Function (i-to-j) | |
| plot.ppm | plot a Fitted Point Process Model | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| plot.ppp | plot a Spatial Point Pattern | |
| rSSI | Simulate Simple Sequential Inhibition | |
| Kest | K-function | |
| shift.im | Apply Vector Translation To Pixel Image | |
| plot.splitppp | Plot a List of Point Patterns | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| plot.fv | Plot Function Valuesn | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| ppm | Fit Point Process Model to Data | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| Kmeasure | Reduced Second Moment Measure | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| shift | Apply Vector Translation | |
| psp | Create a Line Segment Pattern | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| Pairwise | Generic Pairwise Interaction model | |
| rMaternI | Simulate Matern Model I | |
| rMaternII | Simulate Matern Model II | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| distmap.ppp | Distance Map of Point Pattern | |
| pairdist.ppp | Pairwise distances | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| rlabel | Random Re-Labelling of Point Pattern | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| setcov | Set Covariance of a Window | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| envelope | Simulation envelopes of summary function | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| summary.quad | Summarizing a Quadrature Scheme | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| psp.object | Class of Line Segment Patterns | |
| rotate | Rotate | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| subsetget.im | Reset Values in Subset of Image | |
| plot.listof | Plot a List of Things | |
| units | Name for Unit of Length | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| fasp.object | Function Arrays for Spatial Patterns | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| Kest.fft | K-function using FFT | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| pairdist | Pairwise distances | |
| copper | Berman-Huntington points and lines data | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| progressreport | Print Progress Reports | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| plot.im | Plot a Pixel Image | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| chorley | Chorley-Ribble Cancer Data | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| Ord | Generic Ord Interaction model | |
| diameter | Diameter of a Window | |
| rotate.ppp | Rotate a Point Pattern | |
| anemones | Beadlet Anemones Data | |
| summary.splitppp | Summary of a Split Point Pattern | |
| eval.fv | Evaluate Expression Involving Functions | |
| Geyer | Geyer's Saturation Point Process Model | |
| eem | Exponential Energy Marks | |
| angles.psp | Orientation Angles of Line Segments | |
| as.owin | Convert Data To Class owin | |
| Strauss | The Strauss Point Process Model | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| im.object | Class of Images | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| finpines | Pine saplings in Finland. | |
| union.quad | Union of Data and Dummy Points | |
| spokes | Spokes pattern of dummy points | |
| ord.family | Ord Interaction Process Family | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| rescale.owin | Convert Window to Another Unit of Length | |
| vertices | Vertices of a Window | |
| pairdist.psp | Pairwise distances between line segments | |
| gridcentres | Rectangular grid of points | |
| hist.im | Histogram of Pixel Values in an Image | |
| Jdot | Multitype J Function (i-to-any) | |
| affine.owin | Apply Affine Transformation To Window | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| pcf | Pair Correlation Function | |
| rmpoint | Generate N Random Multitype Points | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| rThomas | Simulate Thomas Process | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| levelset | Level Set of a Pixel Image | |
| rotate.psp | Rotate a Line Segment Pattern | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| nndist | Nearest neighbour distances | |
| rotate.owin | Rotate a Window | |
| bdist.pixels | Distance to Boundary of Window | |
| hamster | Aherne's hamster tumour data | |
| im | Create a Pixel Image Object | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| crossdist | Pairwise distances | |
| fv.object | Data Frames of Function Values | |
| markcorr | Mark Correlation Function | |
| lurking | Lurking variable plot | |
| subset.im | Extract Subset of Image | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| contour.im | Contour plot of pixel image | |
| pairwise.family | Pairwise Interaction Process Family | |
| rshift | Random Shift | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| bei | Tropical rain forest trees | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| quantile.im | Sample Quantiles of Pixel Image | |
| harmonic | Basis for Harmonic Functions | |
| pairdist.default | Pairwise distances | |
| rthin | Random Thinning | |
| subset.fv | Extract Subset of Function Values | |
| owin.object | Class owin | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| letterR | Window in Shape of Letter R | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| suffstat | Sufficient Statistic of Point Process Model | |
| swedishpines | Swedish Pines Point Pattern | |
| as.rectangle | Window Frame | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| quadratcount | Quadrat counting for a point pattern | |
| plot.owin | Plot a Spatial Window | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| print.ppm | Print a Fitted Point Process Model | |
| rpoispp | Generate Poisson Point Pattern | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| erode.owin | Erode a Window | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| summary.im | Summarizing a Pixel Image | |
| trim.rectangle | Cut margins from rectangle | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| lansing | Lansing Woods Point Pattern | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| spruces | Spruces Point Pattern | |
| runifpoint | Generate N Uniform Random Points | |
| superimpose | Superimpose Several Point Patterns | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| shift.owin | Apply Vector Translation To Window | |
| lengths.psp | Lengths of Line Segments | |
| nztrees | New Zealand Trees Point Pattern | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| Iest | Estimate the I-function | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| rstrat | Simulate Stratified Random Point Pattern | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| unmark | Remove Marks from a Marked Point Pattern | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| mean.im | Mean Pixel Value in an Image | |
| ppm.object | Class of Fitted Point Process Models | |
| persp.im | Perspective Plot of Pixel Image | |
| pppdist | Optimal Match Between Two Point Patterns | |
| print.quad | Print a Quadrature Scheme | |
| rMatClust | Simulate Matern Cluster Process | |
| quad.object | Class of Quadrature Schemes | |
| scanpp | Read Point Pattern From Data File | |
| simdat | Simulated Point Pattern | |
| summary.listof | Summary of a List of Things | |
| square | Square Window | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| update.ppm | Update a Fitted Point Process Model | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| cells | Biological Cells Point Pattern | |
| clickpoly | Interactively Define a Polygon | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| interp.im | Interpolate a Pixel Image | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| rescale | Convert dataset to another unit of length | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| rpoisline | Generate Poisson Random Line Process | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| spatstat.options | Internal Options in Spatstat Package | |
| summary.owin | Summary of a Spatial Window | |
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Details
| Date | 08 May 2007 |
| License | GPL version 2 or newer |
| URL | http://www.spatstat.org |
| Packaged | Mon May 14 01:36:09 2007; adrian |
| depends | base (>= 2.4.0) , graphics , mgcv , R (>= 2.4.0) , stats |
| suggests | deldir , sm |
| Contributors | Rolf Turner, Adrian Baddeley |
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