spatstat v1.12-6
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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 | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| Poisson | Poisson Point Process Model | |
| as.im | Convert to Pixel Image | |
| Gest | Nearest Neighbour Distance Function G | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| Jest | Estimate the J-function | |
| Kdot | Multitype K Function (i-to-any) | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| Linhom | L-function | |
| Jcross | Multitype J Function (i-to-j) | |
| Softcore | The Soft Core Point Process Model | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| spatstat-deprecated | Deprecated spatstat functions | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| bdist.pixels | Distance to Boundary of Window | |
| as.psp | Convert Data To Class psp | |
| Kmeasure | Reduced Second Moment Measure | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| as.data.frame.ppp | Coerce Point Pattern to a Data Frame | |
| plot.hyperframe | Plot Entries in a Hyperframe | |
| affine.owin | Apply Affine Transformation To Window | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| rMaternI | Simulate Matern Model I | |
| lansing | Lansing Woods Point Pattern | |
| append.psp | Combine Two Line Segment Patterns | |
| alltypes | Calculate Statistic for All Types in a Multitype Point Pattern | |
| Fest | Estimate the empty space function F | |
| plot.ppp | plot a Spatial Point Pattern | |
| DiggleGratton | Diggle-Gratton model | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| AreaInter | The Area Interaction Point Process Model | |
| bdist.points | Distance to Boundary of Window | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| Saturated | Saturated Pairwise Interaction model | |
| OrdThresh | Ord's Interaction model | |
| as.rectangle | Window Frame | |
| LennardJones | The Lennard-Jones Potential | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| Pairwise | Generic Pairwise Interaction model | |
| spatstat | The Spatstat Package | |
| japanesepines | Japanese Pines Point Pattern | |
| convexhull.xy | Convex Hull of Points | |
| copper | Berman-Huntington points and lines data | |
| Lest | L-function | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| nndist.psp | Nearest neighbour distances between line segments | |
| Iest | Estimate the I-function | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| bei | Tropical rain forest trees | |
| eval.fv | Evaluate Expression Involving Functions | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| ants | Harkness-Isham ants' nests data | |
| envelope | Simulation envelopes of summary function | |
| contour.im | Contour plot of pixel image | |
| crossdist | Pairwise distances | |
| anemones | Beadlet Anemones Data | |
| clarkevans | Clark and Evans Aggregation Index | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| superimpose | Superimpose Several Point Patterns | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| identify.ppp | Identify Points in a Point Pattern | |
| affine | Apply Affine Transformation | |
| expand.owin | Expand Window By Factor | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| as.ppp | Convert Data To Class ppp | |
| cells | Biological Cells Point Pattern | |
| hist.im | Histogram of Pixel Values in an Image | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| discretise | Safely Convert Point Pattern Window to Binary Mask | |
| quadratcount | Quadrat counting for a point pattern | |
| eem | Exponential Energy Marks | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| eval.hyper | Evaluate an Expression in Each Row of a Hyperframe | |
| complement.owin | Take Complement of a Window | |
| corners | Corners of a rectangle | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| area.owin | Area of a Window | |
| Ord | Generic Ord Interaction model | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| Jdot | Multitype J Function (i-to-any) | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| areadiff | Difference of Disc Areas | |
| is.multitype | Test whether Object is Multitype | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| inside.owin | Test Whether Points Are Inside A Window | |
| im.object | Class of Images | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| Kcross | Multitype K Function (Cross-type) | |
| profilepl | Profile Maximum Pseudolikelihood | |
| im | Create a Pixel Image Object | |
| print.im | Print Brief Details of an Image | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| angles.psp | Orientation Angles of Line Segments | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| pairdist.default | Pairwise distances | |
| is.im | Test Whether An Object Is A Pixel Image | |
| matchingdist | Distance for a Point Pattern Matching | |
| fasp.object | Function Arrays for Spatial Patterns | |
| levelset | Level Set of a Pixel Image | |
| plot.splitppp | Plot a List of Point Patterns | |
| print.owin | Print Brief Details of a Spatial Window | |
| fv.object | Data Frames of Function Values | |
| chorley | Chorley-Ribble Cancer Data | |
| quantile.im | Sample Quantiles of Pixel Image | |
| ord.family | Ord Interaction Process Family | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| diameter | Diameter of a Window | |
| crossdist.default | Pairwise distances between two different sets of points | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| hyperframe | Hyper Data Frame | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| print.ppm | Print a Fitted Point Process Model | |
| pairdist.psp | Pairwise distances between line segments | |
| gridcentres | Rectangular grid of points | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| inforder.family | Infinite Order Interaction Family | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| Kinhom | Inhomogeneous K-function | |
| dilate.owin | Dilate a Window | |
| disc | Circular Window | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| print.quad | Print a Quadrature Scheme | |
| interp.im | Interpolate a Pixel Image | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| pcf | Pair Correlation Function | |
| plot.fv | Plot Function Valuesn | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| pppmatching | Create a Point Matching | |
| plot.ppm | plot a Fitted Point Process Model | |
| rescale | Convert dataset to another unit of length | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| quad.object | Class of Quadrature Schemes | |
| pairdist.ppp | Pairwise distances | |
| rlinegrid | Generate grid of parallel lines with random displacement | |
| eroded.areas | Areas of Morphological Erosions | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| nztrees | New Zealand Trees Point Pattern | |
| ppm.object | Class of Fitted Point Process Models | |
| psp | Create a Line Segment Pattern | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| rotate.ppp | Rotate a Point Pattern | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| logLik.ppm | Log Likelihood for Poisson Point Process Model | |
| ppp | Create a Point Pattern | |
| as.owin | Convert Data To Class owin | |
| rpoint | Generate N Random Points | |
| lurking | Lurking variable plot | |
| finpines | Pine saplings in Finland. | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| persp.im | Perspective Plot of Pixel Image | |
| bounding.box.xy | Convex Hull of Points | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| centroid.owin | Centroid of a window | |
| suffstat | Sufficient Statistic of Point Process Model | |
| summary.quad | Summarizing a Quadrature Scheme | |
| reach | Interaction Distance of a Point Process | |
| shift.owin | Apply Vector Translation To Window | |
| spatstat-internal | Internal spatstat functions | |
| trim.rectangle | Cut margins from rectangle | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| localK | Neighbourhood density function | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| subsetget.im | Reset Values in Subset of Image | |
| pairwise.family | Pairwise Interaction Process Family | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| owin | Create a Window | |
| plot.owin | Plot a Spatial Window | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| plot.im | Plot a Pixel Image | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| rotate.psp | Rotate a Line Segment Pattern | |
| erode.owin | Erode a Window | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| ripras | Estimate window from points alone | |
| nnwhich | Nearest neighbour | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| summary.splitppp | Summary of a Split Point Pattern | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| update.ppm | Update a Fitted Point Process Model | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| rlabel | Random Re-Labelling of Point Pattern | |
| rGaussPoisson | Simulate Gauss-Poisson Process | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| rstrat | Simulate Stratified Random Point Pattern | |
| summary.im | Summarizing a Pixel Image | |
| rsyst | Simulate systematic random point pattern | |
| marktable | Tabulate Marks in Neighbourhood of Every Point in a Point Pattern | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| setcov | Set Covariance of a Window | |
| scanpp | Read Point Pattern From Data File | |
| vertices | Vertices of a Window | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| rthin | Random Thinning | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| summary.owin | Summary of a Spatial Window | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| mincontrast | Method of Minimum Contrast | |
| subset.fv | Extract Subset of Function Values | |
| square | Square Window | |
| swedishpines | Swedish Pines Point Pattern | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| pairdist | Pairwise distances | |
| unmark | Remove Marks from a Marked Point Pattern | |
| shift.im | Apply Vector Translation To Pixel Image | |
| plot.listof | Plot a List of Things | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| nndist | Nearest neighbour distances | |
| rpoispp | Generate Poisson Point Pattern | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| pppdist | Distance Between Two Point Patterns | |
| mean.im | Mean Pixel Value in an Image | |
| markcorr | Mark Correlation Function | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| spruces | Spruces Point Pattern | |
| letterR | Window in Shape of Letter R | |
| rMaternII | Simulate Matern Model II | |
| psp.object | Class of Line Segment Patterns | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| ponderosa | Ponderosa Pine Tree Point Pattern | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| rshift | Random Shift | |
| is.owin | Test Whether An Object Is A Window | |
| progressreport | Print Progress Reports | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| rescale.owin | Convert Window to Another Unit of Length | |
| rMatClust | Simulate Matern Cluster Process | |
| spatstat.options | Internal Options in Spatstat Package | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| rmpoint | Generate N Random Multitype Points | |
| spokes | Spokes pattern of dummy points | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| subset.im | Extract Subset of Image | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| ppm | Fit Point Process Model to Data | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| is.marked | Test Whether Marks Are Present | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| hamster | Aherne's hamster tumour data | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| simdat | Simulated Point Pattern | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| runifpoint | Generate N Uniform Random Points | |
| shift | Apply Vector Translation | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| subset.fasp | Extract Subset of Function Array | |
| harmonic | Basis for Harmonic Functions | |
| rSSI | Simulate Simple Sequential Inhibition | |
| distmap.ppp | Distance Map of Point Pattern | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| intersect.owin | Intersection or Union of Two Windows | |
| unitname | Name for Unit of Length | |
| clickppp | Interactively Add Points | |
| Kest | K-function | |
| cut.ppp | Convert Point Pattern Marks from Numeric to Factor | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| distmap.owin | Distance Map of Window | |
| ppp.object | Class of Point Patterns | |
| lengths.psp | Lengths of Line Segments | |
| smooth.ppp | Spatial smoothing of observations at irregular points | |
| pppmatching.object | Class of Point Matchings | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| rThomas | Simulate Thomas Process | |
| union.quad | Union of Data and Dummy Points | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| clickpoly | Interactively Define a Polygon | |
| amacrine | Hughes' Amacrine Cell Data | |
| Kest.fft | K-function using FFT | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| demopat | Artificial Data Point Pattern | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| as.mask | Pixel Image Approximation of a Window | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| owin.object | Class owin | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| Geyer | Geyer's Saturation Point Process Model | |
| Kmulti | Marked K-Function | |
| distmap | Distance Map | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| bramblecanes | Hutchings' Bramble Canes data | |
| Jmulti | Marked J Function | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| kstest.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| plot.fasp | Plot a Function Array | |
| longleaf | Longleaf Pines Point Pattern | |
| rotate.owin | Rotate a Window | |
| rpoisline | Generate Poisson Random Line Process | |
| rotate | Rotate | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| summary.listof | Summary of a List of Things | |
| Strauss | The Strauss Point Process Model | |
| No Results! | ||
Last month downloads
Details
| Date | 04 February 2008 |
| License | GPL (>= 2) |
| URL | http://www.spatstat.org |
| Packaged | Mon Feb 4 23:20:32 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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