spatstat v1.10-3
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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 | |
| Jdot | Multitype J Function (i-to-any) | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| cells | Biological Cells Point Pattern | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| hamster | Aherne's hamster tumour data | |
| Kcross | Multitype K Function (Cross-type) | |
| bei | Tropical rain forest trees | |
| diameter | Diameter of a Window Frame | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| is.im | Test Whether An Object Is A Pixel Image | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| rpoint | Generate N Random Points | |
| shift.im | Apply Vector Translation To Pixel Image | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| rMaternII | Simulate Matern Model II | |
| angles.psp | Orientation Angles of Line Segments | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| eem | Exponential Energy Marks | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| lengths.psp | Lengths of Line Segments | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| plot.ppp | plot a Spatial Point Pattern | |
| as.owin | Convert Data To Class owin | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| Kest.fft | K-function using FFT | |
| fasp.object | Function Arrays for Spatial Patterns | |
| spokes | Spokes pattern of dummy points | |
| longleaf | Longleaf Pines Point Pattern | |
| Kest | K-function | |
| psp | Create a Line Segment Pattern | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| runifpoint | Generate N Uniform Random Points | |
| Jest | Estimate the J-function | |
| bdist.points | Distance to Boundary of Window | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| bounding.box | Bounding Box of a Window | |
| print.quad | Print a Quadrature Scheme | |
| LennardJones | The Lennard-Jones Potential | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| rlabel | Random Re-Labelling of Point Pattern | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| pairwise.family | Pairwise Interaction Process Family | |
| Jmulti | Marked J Function | |
| subset.fv | Extract Subset of Function Values | |
| is.multitype | Test whether Object is Multitype | |
| nnwhich | Nearest neighbour | |
| lurking | Lurking variable plot | |
| bramblecanes | Hutchings' Bramble Canes data | |
| setcov | Set Covariance of a Window | |
| superimpose | Superimpose Several Point Patterns | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| copper | Berman-Huntington points and lines data | |
| dilate.owin | Dilate a Window | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| im.object | Class of Images | |
| pairdist | Pairwise distances | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| spatstat.options | Internal Options in Spatstat Package | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| ord.family | Ord Interaction Process Family | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| swedishpines | Swedish Pines Point Pattern | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| unmark | Remove Marks from a Marked Point Pattern | |
| lansing | Lansing Woods Point Pattern | |
| subset.fasp | Extract Subset of Function Array | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| persp.im | Perspective Plot of Pixel Image | |
| is.owin | Test Whether An Object Is A Window | |
| plot.listof | Plot a List of Things | |
| suffstat | Sufficient Statistic of Point Process Model | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| plot.im | Plot a Pixel Image | |
| plot.ppm | plot a Fitted Point Process Model | |
| Saturated | Saturated Pairwise Interaction model | |
| scanpp | Read Point Pattern From Data File | |
| rsyst | Simulate systematic random point pattern | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| Fest | Estimate the empty space function F | |
| summary.quad | Summarizing a Quadrature Scheme | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| subset.im | Extract Subset of Image | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| distmap.owin | Distance Map of Window | |
| disc | Circular Window | |
| inside.owin | Test Whether Points Are Inside A Window | |
| finpines | Pine saplings in Finland. | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| area.owin | Area of a Window | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| shift | Apply Vector Translation | |
| Softcore | The Soft Core Point Process Model | |
| reach | Interaction Distance of a Point Process | |
| trim.rectangle | Cut margins from rectangle | |
| contour.im | Contour plot of pixel image | |
| distmap.ppp | Distance Map of Point Pattern | |
| mean.im | Mean Pixel Value in an Image | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| nztrees | New Zealand Trees Point Pattern | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| rescale | Convert dataset to another unit of length | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| rotate | Rotate | |
| OrdThresh | Ord's Interaction model | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| Jcross | Multitype J Function (i-to-j) | |
| japanesepines | Japanese Pines Point Pattern | |
| Poisson | Poisson Point Process Model | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| pairdist.default | Pairwise distances | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| demopat | Artificial Data Point Pattern | |
| profilepl | Profile Maximum Pseudolikelihood | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| rotate.psp | Rotate a Line Segment Pattern | |
| Gest | Nearest Neighbour Distance Function G | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| plot.fasp | Plot a Function Array | |
| DiggleGratton | Diggle-Gratton model | |
| ppp.object | Class of Point Patterns | |
| crossdist | Pairwise distances | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| as.im | Convert to Pixel Image | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| gridcentres | Rectangular grid of points | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| clickppp | Interactively Add Points | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| complement.owin | Take Complement of a Window | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| print.ppm | Print a Fitted Point Process Model | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| print.owin | Print Brief Details of a Spatial Window | |
| as.mask | Pixel Image Approximation of a Window | |
| ppp | Create a Point Pattern | |
| print.im | Print Brief Details of an Image | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| rSSI | Simulate Simple Sequential Inhibition | |
| quadratcount | Quadrat counting for a point pattern | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| update.ppm | Update a Fitted Point Process Model | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| rpoispp | Generate Poisson Point Pattern | |
| rshift | Random Shift | |
| owin.object | Class owin | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| rotate.ppp | Rotate a Point Pattern | |
| rescale.owin | Convert Window to Another Unit of Length | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| units | Name for Unit of Length | |
| summary.owin | Summary of a Spatial Window | |
| Iest | Estimate the I-function | |
| Kinhom | Inhomogeneous K-function | |
| Ord | Generic Ord Interaction model | |
| Pairwise | Generic Pairwise Interaction model | |
| Kmulti | Marked K-Function | |
| eval.fv | Evaluate Expression Involving Functions | |
| amacrine | Hughes' Amacrine Cell Data | |
| letterR | Window in Shape of Letter R | |
| corners | Corners of a rectangle | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| markcorr | Mark Correlation Function | |
| centroid.owin | Centroid of a window | |
| is.marked | Test Whether Marks Are Present | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| plot.owin | Plot a Spatial Window | |
| ppm | Fit Point Process Model to Data | |
| rMaternI | Simulate Matern Model I | |
| pairdist.psp | Pairwise distances between line segments | |
| ripras | Estimate window from points alone | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| nndist | Nearest neighbour distances | |
| psp.object | Class of Line Segment Patterns | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| append.psp | Combine Two Line Segment Patterns | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| as.psp | Convert Data To Class psp | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| rstrat | Simulate Stratified Random Point Pattern | |
| harmonic | Basis for Harmonic Functions | |
| spatstat-deprecated | Deprecated spatstat functions | |
| rthin | Random Thinning | |
| square | Square Window | |
| intersect.owin | Intersection or Union of Two Windows | |
| levelset | Level Set of a Pixel Image | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| quad.object | Class of Quadrature Schemes | |
| plot.fv | Plot Function Valuesn | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| bdist.pixels | Distance to Boundary of Window | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| rMatClust | Simulate Matern Cluster Process | |
| rmpoint | Generate N Random Multitype Points | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| summary.im | Summarizing a Pixel Image | |
| identify.ppp | Identify Points in a Point Pattern | |
| spatstat-internal | Internal spatstat functions | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| ppm.object | Class of Fitted Point Process Models | |
| quantile.im | Sample Quantiles of Pixel Image | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| Kmeasure | Reduced Second Moment Measure | |
| affine.owin | Apply Affine Transformation To Window | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| as.ppp | Convert Data To Class ppp | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| fv.object | Data Frames of Function Values | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| shift.owin | Apply Vector Translation To Window | |
| affine | Apply Affine Transformation | |
| distmap | Distance Map | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| pcf | Pair Correlation Function | |
| expand.owin | Expand Window By Factor | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| hist.im | Histogram of Pixel Values in an Image | |
| Kdot | Multitype K Function (i-to-any) | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| envelope | Simulation envelopes of summary function | |
| eroded.areas | Areas of Morphological Erosions | |
| spatstat | The Spatstat Package | |
| im | Create a Pixel Image Object | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| erode.owin | Erode a Window | |
| rpoisline | Generate Poisson Random Line Process | |
| pairdist.ppp | Pairwise distances | |
| plot.splitppp | Plot a List of Point Patterns | |
| as.rectangle | Window Frame | |
| union.quad | Union of Data and Dummy Points | |
| spruces | Spruces Point Pattern | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| crossdist.default | Pairwise distances between two different sets of points | |
| mincontrast | Method of Minimum Contrast | |
| rotate.owin | Rotate a Window | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| Geyer | Geyer's Saturation Point Process Model | |
| simdat | Simulated Point Pattern | |
| Strauss | The Strauss Point Process Model | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| chorley | Chorley-Ribble Cancer Data | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| rThomas | Simulate Thomas Process | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| pppdist | Optimal Match Between Two Point Patterns | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| ants | Harkness-Isham ants' nests data | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| owin | Create a Window | |
| No Results! | ||
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Details
| Date | 20 November 2006 |
| License | GPL version 2 or newer |
| URL | http://www.spatstat.org |
| Packaged | Mon Nov 20 16:03:00 2006; adrian |
| depends | base (>= 2.2.0) , mgcv , R (>= 2.2.0) |
| suggests | deldir , sm |
| Contributors | Rolf Turner, Adrian Baddeley |
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