spatstat v1.12-4
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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 | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| Kdot | Multitype K Function (i-to-any) | |
| distmap.ppp | Distance Map of Point Pattern | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| Kinhom | Inhomogeneous K-function | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| ppm | Fit Point Process Model to Data | |
| Iest | Estimate the I-function | |
| angles.psp | Orientation Angles of Line Segments | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| clickppp | Interactively Add Points | |
| amacrine | Hughes' Amacrine Cell Data | |
| copper | Berman-Huntington points and lines data | |
| quantile.im | Sample Quantiles of Pixel Image | |
| levelset | Level Set of a Pixel Image | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| as.psp | Convert Data To Class psp | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| Jdot | Multitype J Function (i-to-any) | |
| Softcore | The Soft Core Point Process Model | |
| Kmeasure | Reduced Second Moment Measure | |
| im.object | Class of Images | |
| plot.splitppp | Plot a List of Point Patterns | |
| Fest | Estimate the empty space function F | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| Kest.fft | K-function using FFT | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| affine.owin | Apply Affine Transformation To Window | |
| bei | Tropical rain forest trees | |
| LennardJones | The Lennard-Jones Potential | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| ants | Harkness-Isham ants' nests data | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| as.data.frame.ppp | Coerce Point Pattern to a Data Frame | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| anemones | Beadlet Anemones Data | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| clickpoly | Interactively Define a Polygon | |
| distmap | Distance Map | |
| owin.object | Class owin | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| harmonic | Basis for Harmonic Functions | |
| as.rectangle | Window Frame | |
| contour.im | Contour plot of pixel image | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| nndist | Nearest neighbour distances | |
| bdist.pixels | Distance to Boundary of Window | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| psp.object | Class of Line Segment Patterns | |
| inside.owin | Test Whether Points Are Inside A Window | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| centroid.owin | Centroid of a window | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| summary.quad | Summarizing a Quadrature Scheme | |
| nnwhich | Nearest neighbour | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| spatstat | The Spatstat Package | |
| persp.im | Perspective Plot of Pixel Image | |
| corners | Corners of a rectangle | |
| subset.fv | Extract Subset of Function Values | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| bramblecanes | Hutchings' Bramble Canes data | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| is.multitype | Test whether Object is Multitype | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| japanesepines | Japanese Pines Point Pattern | |
| eval.hyper | Evaluate an Expression in Each Row of a Hyperframe | |
| Strauss | The Strauss Point Process Model | |
| hist.im | Histogram of Pixel Values in an Image | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| demopat | Artificial Data Point Pattern | |
| clarkevans | Clark and Evans Aggregation Index | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| eem | Exponential Energy Marks | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| localK | Neighbourhood density function | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| rMaternII | Simulate Matern Model II | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| matchingdist | Distance for a Point Pattern Matching | |
| summary.splitppp | Summary of a Split Point Pattern | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| Jest | Estimate the J-function | |
| as.ppp | Convert Data To Class ppp | |
| pairdist.default | Pairwise distances | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| spatstat-deprecated | Deprecated spatstat functions | |
| DiggleGratton | Diggle-Gratton model | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| im | Create a Pixel Image Object | |
| ks.test.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| Jmulti | Marked J Function | |
| interp.im | Interpolate a Pixel Image | |
| bounding.box.xy | Convex Hull of Points | |
| as.im | Convert to Pixel Image | |
| print.ppm | Print a Fitted Point Process Model | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| print.quad | Print a Quadrature Scheme | |
| convexhull.xy | Convex Hull of Points | |
| plot.owin | Plot a Spatial Window | |
| envelope | Simulation envelopes of summary function | |
| Kcross | Multitype K Function (Cross-type) | |
| OrdThresh | Ord's Interaction model | |
| plot.listof | Plot a List of Things | |
| Kmulti | Marked K-Function | |
| rSSI | Simulate Simple Sequential Inhibition | |
| Pairwise | Generic Pairwise Interaction model | |
| nndist.psp | Nearest neighbour distances between line segments | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| pppdist | Distance Between Two Point Patterns | |
| crossdist | Pairwise distances | |
| Poisson | Poisson Point Process Model | |
| rotate.ppp | Rotate a Point Pattern | |
| lengths.psp | Lengths of Line Segments | |
| plot.ppp | plot a Spatial Point Pattern | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| ppm.object | Class of Fitted Point Process Models | |
| gridcentres | Rectangular grid of points | |
| Kest | K-function | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| Saturated | Saturated Pairwise Interaction model | |
| rshift | Random Shift | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| Jcross | Multitype J Function (i-to-j) | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| plot.im | Plot a Pixel Image | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| plot.hyperframe | Plot Entries in a Hyperframe | |
| rMaternI | Simulate Matern Model I | |
| Lest | L-function | |
| psp | Create a Line Segment Pattern | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| Ord | Generic Ord Interaction model | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| rlabel | Random Re-Labelling of Point Pattern | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| plot.fv | Plot Function Valuesn | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| rescale.owin | Convert Window to Another Unit of Length | |
| rThomas | Simulate Thomas Process | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| longleaf | Longleaf Pines Point Pattern | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| Gest | Nearest Neighbour Distance Function G | |
| spruces | Spruces Point Pattern | |
| as.owin | Convert Data To Class owin | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| dilate.owin | Dilate a Window | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| mincontrast | Method of Minimum Contrast | |
| bdist.points | Distance to Boundary of Window | |
| suffstat | Sufficient Statistic of Point Process Model | |
| append.psp | Combine Two Line Segment Patterns | |
| ppp | Create a Point Pattern | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| quadratcount | Quadrat counting for a point pattern | |
| hamster | Aherne's hamster tumour data | |
| rotate.psp | Rotate a Line Segment Pattern | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| smooth.ppp | Spatial smoothing of observations at irregular points | |
| update.ppm | Update a Fitted Point Process Model | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| simdat | Simulated Point Pattern | |
| discretise | Safely Convert Point Pattern Window to Binary Mask | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| spatstat.options | Internal Options in Spatstat Package | |
| nztrees | New Zealand Trees Point Pattern | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| is.marked | Test Whether Marks Are Present | |
| fasp.object | Function Arrays for Spatial Patterns | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| pairdist | Pairwise distances | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| spatstat-internal | Internal spatstat functions | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| rotate.owin | Rotate a Window | |
| complement.owin | Take Complement of a Window | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| as.mask | Pixel Image Approximation of a Window | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| rstrat | Simulate Stratified Random Point Pattern | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| area.owin | Area of a Window | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| intersect.owin | Intersection or Union of Two Windows | |
| ppp.object | Class of Point Patterns | |
| chorley | Chorley-Ribble Cancer Data | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| ripras | Estimate window from points alone | |
| shift | Apply Vector Translation | |
| fv.object | Data Frames of Function Values | |
| lansing | Lansing Woods Point Pattern | |
| rMatClust | Simulate Matern Cluster Process | |
| rpoisline | Generate Poisson Random Line Process | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| plot.ppm | plot a Fitted Point Process Model | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| rsyst | Simulate systematic random point pattern | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| profilepl | Profile Maximum Pseudolikelihood | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| lurking | Lurking variable plot | |
| pairdist.psp | Pairwise distances between line segments | |
| scanpp | Read Point Pattern From Data File | |
| identify.ppp | Identify Points in a Point Pattern | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| print.im | Print Brief Details of an Image | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| is.im | Test Whether An Object Is A Pixel Image | |
| runifpoint | Generate N Uniform Random Points | |
| vertices | Vertices of a Window | |
| eroded.areas | Areas of Morphological Erosions | |
| swedishpines | Swedish Pines Point Pattern | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| pcf | Pair Correlation Function | |
| letterR | Window in Shape of Letter R | |
| affine | Apply Affine Transformation | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| cells | Biological Cells Point Pattern | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| rescale | Convert dataset to another unit of length | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| square | Square Window | |
| pairdist.ppp | Pairwise distances | |
| markcorr | Mark Correlation Function | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| setcov | Set Covariance of a Window | |
| rmpoint | Generate N Random Multitype Points | |
| summary.im | Summarizing a Pixel Image | |
| rlinegrid | Generate grid of parallel lines with random displacement | |
| rotate | Rotate | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| print.owin | Print Brief Details of a Spatial Window | |
| ord.family | Ord Interaction Process Family | |
| shift.im | Apply Vector Translation To Pixel Image | |
| owin | Create a Window | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| superimpose | Superimpose Several Point Patterns | |
| plot.fasp | Plot a Function Array | |
| unmark | Remove Marks from a Marked Point Pattern | |
| progressreport | Print Progress Reports | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| unitname | Name for Unit of Length | |
| union.quad | Union of Data and Dummy Points | |
| reach | Interaction Distance of a Point Process | |
| shift.owin | Apply Vector Translation To Window | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| spokes | Spokes pattern of dummy points | |
| summary.owin | Summary of a Spatial Window | |
| subset.fasp | Extract Subset of Function Array | |
| subsetget.im | Reset Values in Subset of Image | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| distmap.owin | Distance Map of Window | |
| Geyer | Geyer's Saturation Point Process Model | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| erode.owin | Erode a Window | |
| expand.owin | Expand Window By Factor | |
| eval.fv | Evaluate Expression Involving Functions | |
| diameter | Diameter of a Window | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| is.owin | Test Whether An Object Is A Window | |
| logLik.ppm | Log Likelihood for Poisson Point Process Model | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| ponderosa | Ponderosa Pine Tree Point Pattern | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| rpoint | Generate N Random Points | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| rthin | Random Thinning | |
| trim.rectangle | Cut margins from rectangle | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| crossdist.default | Pairwise distances between two different sets of points | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| disc | Circular Window | |
| finpines | Pine saplings in Finland. | |
| hyperframe | Hyper Data Frame | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| mean.im | Mean Pixel Value in an Image | |
| pppmatching.object | Class of Point Matchings | |
| quad.object | Class of Quadrature Schemes | |
| rpoispp | Generate Poisson Point Pattern | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| summary.listof | Summary of a List of Things | |
| pairwise.family | Pairwise Interaction Process Family | |
| pppmatching | Create a Point Matching | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| subset.im | Extract Subset of Image | |
| No Results! | ||
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Details
| Date | 18 December 2007 |
| License | GPL (>= 2) |
| URL | http://www.spatstat.org |
| Packaged | Wed Dec 19 01:23:13 2007; 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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