spatstat v1.15-0
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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 | |
| expand.owin | Expand Window By Factor | |
| lansing | Lansing Woods Point Pattern | |
| diameter | Diameter of a Window | |
| murchison | Murchison gold deposits | |
| rThomas | Simulate Thomas Process | |
| cut.im | Convert Pixel Image from Numeric to Factor | |
| plot.hyperframe | Plot Entries in a Hyperframe | |
| fasp.object | Function Arrays for Spatial Patterns | |
| plot.colourmap | Plot a Colour Map | |
| logLik.ppm | Log Likelihood for Poisson Point Process Model | |
| mincontrast | Method of Minimum Contrast | |
| intersect.owin | Intersection or Union of Two Windows | |
| plot.owin | Plot a Spatial Window | |
| pixelquad | Quadrature Scheme Based on Pixel Grid | |
| rotate | Rotate | |
| disc | Circular Window | |
| rmhmodel | Define Point Process Model for Metropolis-Hastings Simulation. | |
| summary.psp | Summary of a Line Segment Pattern Dataset | |
| rMaternII | Simulate Matern Model II | |
| unique.ppp | Extract Unique Points from a Spatial Point Pattern | |
| superimpose | Superimpose Several Point Patterns | |
| rmh | Simulate point patterns using the Metropolis-Hastings algorithm. | |
| square | Square Window | |
| print.owin | Print Brief Details of a Spatial Window | |
| union.quad | Union of Data and Dummy Points | |
| rescale.ppp | Convert Point Pattern to Another Unit of Length | |
| Ord | Generic Ord Interaction model | |
| redwood | California Redwoods Point Pattern (Ripley's Subset) | |
| rotate.ppp | Rotate a Point Pattern | |
| spokes | Spokes pattern of dummy points | |
| is.marked.ppm | Test Whether A Point Process Model is Marked | |
| rStrauss | Perfect Simulation of the Strauss Process | |
| residualspaper | Data and Code From JRSS Discussion Paper on Residuals | |
| identify.ppp | Identify Points in a Point Pattern | |
| owin | Create a Window | |
| spatstat.options | Internal Options in Spatstat Package | |
| Lest | L-function | |
| rGaussPoisson | Simulate Gauss-Poisson Process | |
| longleaf | Longleaf Pines Point Pattern | |
| rotate.psp | Rotate a Line Segment Pattern | |
| pcfcross | Multitype pair correlation function | |
| concatxy | Concatenate x,y Coordinate Vectors | |
| default.dummy | Generate a Default Pattern of Dummy Points | |
| markcorr | Mark Correlation Function | |
| plot.ppm | plot a Fitted Point Process Model | |
| spatstat-deprecated | Deprecated spatstat functions | |
| quadratresample | Resample a Point Pattern by Resampling Quadrats | |
| lengths.psp | Lengths of Line Segments | |
| corners | Corners of a rectangle | |
| ppp | Create a Point Pattern | |
| pairdist.default | Pairwise distances | |
| project2segment | Move Point To Nearest Line | |
| plot.quad | plot a Spatial Quadrature Scheme | |
| nearest.raster.point | Find Pixel Nearest to a Given Point | |
| predict.kppm | Prediction from a Fitted Cluster Point Process Model | |
| spruces | Spruces Point Pattern | |
| gridweights | Compute Quadrature Weights Based on Grid Counts | |
| subsetget.im | Reset Values in Subset of Image | |
| plot.psp | plot a Spatial Line Segment Pattern | |
| dirichlet | Dirichlet Tessellation of Point Pattern | |
| dirichlet.weights | Compute Quadrature Weights Based on Dirichlet Tessellation | |
| rshift.splitppp | Randomly Shift a List of Point Patterns | |
| pcf.fasp | Pair Correlation Function obtained from array of K functions | |
| nztrees | New Zealand Trees Point Pattern | |
| diagnose.ppm | Diagnostic Plots for Fitted Point Process Model | |
| summary.quad | Summarizing a Quadrature Scheme | |
| eval.fasp | Evaluate Expression Involving Function Arrays | |
| crossdist.default | Pairwise distances between two different sets of points | |
| rshift.psp | Randomly Shift a Line Segment Pattern | |
| Jest | Estimate the J-function | |
| is.owin | Test Whether An Object Is A Window | |
| matclust.estK | Fit the Matern Cluster Point Process by Minimum Contrast | |
| qqplot.ppm | Q-Q Plot of Residuals from Fitted Point Process Model | |
| copper | Berman-Huntington points and lines data | |
| intersect.tess | Intersection of Two Tessellations | |
| crossdist | Pairwise distances | |
| eval.im | Evaluate Expression Involving Pixel Images | |
| inforder.family | Infinite Order Interaction Family | |
| rjitter | Random Perturbation of a Point Pattern | |
| cut.ppp | Classify Points in a Point Pattern | |
| incircle | Find Largest Circle Inside Window | |
| is.ppp | Test Whether An Object Is A Point Pattern | |
| Pairwise | Generic Pairwise Interaction model | |
| suffstat | Sufficient Statistic of Point Process Model | |
| ewcdf | Weighted Empirical Cumulative Distribution Function | |
| gpc2owin | Convert Polygonal Region into Different Format | |
| ppp.object | Class of Point Patterns | |
| pppmatching.object | Class of Point Matchings | |
| humberside | Humberside Data on Childhood Leukaemia and Lymphoma | |
| hamster | Aherne's hamster tumour data | |
| nncross | Nearest Neighbour in Another Point Pattern | |
| discretise | Safely Convert Point Pattern Window to Binary Mask | |
| density.ppp | Kernel Smoothed Intensity of Point Pattern | |
| shift.psp | Apply Vector Translation To Line Segment Pattern | |
| quadrat.test | Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts | |
| ppm | Fit Point Process Model to Data | |
| summary.owin | Summary of a Spatial Window | |
| rpoint | Generate N Random Points | |
| effectfun | Compute Fitted Effect of a Spatial Covariate in a Point Process Model | |
| demopat | Artificial Data Point Pattern | |
| tess | Create a Tessellation | |
| rcell | Simulate Baddeley-Silverman Cell Process | |
| fitted.ppm | Fitted Conditional Intensity for Point Process Model | |
| miplot | Morishita Index Plot | |
| hyperframe | Hyper Data Frame | |
| simdat | Simulated Point Pattern | |
| lgcp.estK | Fit a Log-Gaussian Cox Point Process by Minimum Contrast | |
| plot.im | Plot a Pixel Image | |
| harmonic | Basis for Harmonic Functions | |
| plot.fasp | Plot a Function Array | |
| quantile.im | Sample Quantiles of Pixel Image | |
| pixellate | Convert Point Pattern to Pixel Image | |
| pppdist | Distance Between Two Point Patterns | |
| letterR | Window in Shape of Letter R | |
| localK | Neighbourhood density function | |
| lut | Lookup Tables | |
| rescale | Convert dataset to another unit of length | |
| nncorr | Nearest-Neighbour Correlation of Marked Point Pattern | |
| markstat | Summarise Marks in Every Neighbourhood in a Point Pattern | |
| convexhull.xy | Convex Hull of Points | |
| rmpoispp | Generate Multitype Poisson Point Pattern | |
| rmhmodel.default | Build Point Process Model for Metropolis-Hastings Simulation. | |
| inside.owin | Test Whether Points Are Inside A Window | |
| ord.family | Ord Interaction Process Family | |
| dummy.ppm | Extract Dummy Points Used to Fit a Point Process Model | |
| quadscheme | Generate a Quadrature Scheme from a Point Pattern | |
| summary.ppm | Summarizing a Fitted Point Process Model | |
| rpoispp | Generate Poisson Point Pattern | |
| kstest.ppm | Kolmogorov-Smirnov Test for Point Process Model | |
| contour.im | Contour plot of pixel image | |
| plot.kppm | Plot a fitted cluster point process | |
| quadratcount | Quadrat counting for a point pattern | |
| crossing.psp | Crossing Points of Two Line Segment Patterns | |
| hist.im | Histogram of Pixel Values in an Image | |
| unitname | Name for Unit of Length | |
| plot.splitppp | Plot a List of Point Patterns | |
| rSSI | Simulate Simple Sequential Inhibition | |
| kppm | Fit cluster point process model | |
| summary.listof | Summary of a List of Things | |
| progressreport | Print Progress Reports | |
| rshift | Random Shift | |
| rescale.im | Convert Pixel Image to Another Unit of Length | |
| rmh.ppm | Simulate from a Fitted Point Process Model | |
| solutionset | Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True | |
| rpoisline | Generate Poisson Random Line Process | |
| dilate.owin | Dilate a Window | |
| subset.psp | Extract Subset of Line Segment Pattern | |
| pairdist | Pairwise distances | |
| reduced.sample | Reduced Sample Estimator using Histogram Data | |
| subset.fv | Extract Subset of Function Values | |
| crossdist.ppp | Pairwise distances between two different point patterns | |
| plot.listof | Plot a List of Things | |
| marktable | Tabulate Marks in Neighbourhood of Every Point in a Point Pattern | |
| stieltjes | Compute Integral of Function Against Cumulative Distribution | |
| density.psp | Kernel Smoothing of Line Segment Pattern | |
| vertices | Vertices of a Window | |
| rmhmodel.ppm | Interpret Fitted Model for Metropolis-Hastings Simulation. | |
| is.multitype.ppm | Test Whether A Point Process Model is Multitype | |
| thomas.estK | Fit the Thomas Point Process by Minimum Contrast | |
| subset.ppp | Extract or Replace Subset of Point Pattern | |
| summary.ppp | Summary of a Point Pattern Dataset | |
| rmhstart | Determine Initial State for Metropolis-Hastings Simulation. | |
| subset.splitppp | Extract or Replace Sub-Patterns | |
| rsyst | Simulate systematic random point pattern | |
| subset.fasp | Extract Subset of Function Array | |
| print.ppp | Print Brief Details of a Point Pattern Dataset | |
| im | Create a Pixel Image Object | |
| affine.ppp | Apply Affine Transformation To Point Pattern | |
| model.images | Compute Images of Constructed Covariates | |
| print.psp | Print Brief Details of a Line Segment Pattern Dataset | |
| rstrat | Simulate Stratified Random Point Pattern | |
| shift.ppp | Apply Vector Translation To Point Pattern | |
| update.kppm | Update a Fitted Cluster Point Process Model | |
| tiles | Extract List of Tiles in a Tessellation | |
| complement.owin | Take Complement of a Window | |
| ponderosa | Ponderosa Pine Tree Point Pattern | |
| smooth.ppp | Spatial smoothing of observations at irregular points | |
| shift | Apply Vector Translation | |
| finpines | Pine saplings in Finland. | |
| plot.ppp | plot a Spatial Point Pattern | |
| update.ppm | Update a Fitted Point Process Model | |
| shift.owin | Apply Vector Translation To Window | |
| kaplan.meier | Kaplan-Meier Estimator using Histogram Data | |
| pcf.fv | Pair Correlation Function obtained from K Function | |
| pairsat.family | Saturated Pairwise Interaction Point Process Family | |
| pairwise.family | Pairwise Interaction Process Family | |
| distmap | Distance Map | |
| swedishpines | Swedish Pines Point Pattern | |
| spatstat-internal | Internal spatstat functions | |
| multiplicity.ppp | Count Multiplicity of Duplicate Points | |
| redwoodfull | California Redwoods Point Pattern (Entire Dataset) | |
| psp | Create a Line Segment Pattern | |
| is.multitype.ppp | Test Whether A Point Pattern is Multitype | |
| nndist | Nearest neighbour distances | |
| fitin.ppm | Extract the Interaction from a Fitted Point Process Model | |
| opening.owin | Morphological Opening of a Window | |
| superimposePSP | Superimpose Several Line Segment Patterns | |
| Kcross.inhom | Inhomogeneous Cross K Function | |
| envelope | Simulation envelopes of summary function | |
| Strauss | The Strauss Point Process Model | |
| split.im | Divide Image Into Sub-images | |
| duplicated.ppp | Determine Duplicated Points in a Spatial Point Pattern | |
| setcov | Set Covariance of a Window | |
| compatible.fv | Test Whether Two Function Objects Are Compatible | |
| nbfires | Point Patterns of New Brunswick Forest Fires | |
| subset.im | Extract Subset of Image | |
| compatible.im | Test Whether Two Pixel Images Are Compatible | |
| data.ppm | Extract Original Data from a Fitted Point Process Model | |
| japanesepines | Japanese Pines Point Pattern | |
| model.matrix.ppm | Extract Design Matrix from Point Process Model | |
| midpoints.psp | Midpoints of Line Segment Pattern | |
| rmpoint | Generate N Random Multitype Points | |
| Iest | Estimate the I-function | |
| simulate.kppm | Simulate a fitted cluster point process model. | |
| density.splitppp | Kernel Smoothed Intensity of Split Point Pattern | |
| as.im | Convert to Pixel Image | |
| bdist.pixels | Distance to Boundary of Window | |
| quad.object | Class of Quadrature Schemes | |
| is.subset.owin | Determine Whether One Window is Contained In Another | |
| print.im | Print Brief Details of an Image | |
| rMaternI | Simulate Matern Model I | |
| [.quad | Subset of Quadrature Scheme | |
| reach | Interaction Distance of a Point Process | |
| amacrine | Hughes' Amacrine Cell Data | |
| bounding.box | Bounding Box of a Window or Point Pattern | |
| endpoints.psp | Endpoints of Line Segment Pattern | |
| Softcore | The Soft Core Point Process Model | |
| plot.plotppm | Plot a plotppm Object Created by plot.ppm | |
| print.quad | Print a Quadrature Scheme | |
| ppm.object | Class of Fitted Point Process Models | |
| quadrat.test.splitppp | Chi-Squared Test of CSR for Split Point Pattern | |
| clarkevans | Clark and Evans Aggregation Index | |
| area.owin | Area of a Window | |
| rthin | Random Thinning | |
| ripras | Estimate window from points alone | |
| split.ppp | Divide Point Pattern into Sub-patterns | |
| pcf.ppp | Pair Correlation Function of Point Pattern | |
| is.multitype | Test whether Object is Multitype | |
| MultiStrauss | The Multitype Strauss Point Process Model | |
| pairdist.ppp | Pairwise distances | |
| summary.splitppp | Summary of a Split Point Pattern | |
| pcf | Pair Correlation Function | |
| scanpp | Read Point Pattern From Data File | |
| clickpoly | Interactively Define a Polygon | |
| eem | Exponential Energy Marks | |
| Kest | K-function | |
| append.psp | Combine Two Line Segment Patterns | |
| matchingdist | Distance for a Point Pattern Matching | |
| Gmulti | Marked Nearest Neighbour Distance Function | |
| affine | Apply Affine Transformation | |
| trim.rectangle | Cut margins from rectangle | |
| erode.owin | Erode a Window | |
| nndist.psp | Nearest neighbour distances between line segments | |
| lurking | Lurking variable plot | |
| pppmatching | Create a Point Matching | |
| rshift.ppp | Randomly Shift a Point Pattern | |
| anemones | Beadlet Anemones Data | |
| Kcross | Multitype K Function (Cross-type) | |
| Lcross | Multitype L-function (cross-type) | |
| predict.ppm | Prediction from a Fitted Point Process Model | |
| as.mask | Pixel Image Approximation of a Window | |
| ants | Harkness-Isham ants' nests data | |
| profilepl | Profile Maximum Pseudolikelihood | |
| is.marked | Test Whether Marks Are Present | |
| raster.x | Cartesian Coordinates for a Pixel Raster | |
| rNeymanScott | Simulate Neyman-Scott Process | |
| Kmeasure | Reduced Second Moment Measure | |
| distmap.ppp | Distance Map of Point Pattern | |
| quad.ppm | Extract Quadrature Scheme Used to Fit a Point Process Model | |
| nearestsegment | Find Line Segment Nearest to Each Point | |
| vcov.ppm | Variance-Covariance Matrix for a Fitted Point Process Model | |
| runifpoint | Generate N Uniform Random Points | |
| owin.object | Class owin | |
| adaptive.density | Intensity Estimate of Point Pattern Using Tessellation | |
| Poisson | Poisson Point Process Model | |
| gridcentres | Rectangular grid of points | |
| spatstat | The Spatstat Package | |
| eval.fv | Evaluate Expression Involving Functions | |
| Kdot | Multitype K Function (i-to-any) | |
| psp.object | Class of Line Segment Patterns | |
| LennardJones | The Lennard-Jones Potential | |
| rmh.default | Simulate Point Process Models using the Metropolis-Hastings Algorithm. | |
| pointsOnLines | Place Points Evenly Along Specified Lines | |
| is.ppm | Test Whether An Object Is A Fitted Point Process Model | |
| rlinegrid | Generate grid of parallel lines with random displacement | |
| bounding.box.xy | Convex Hull of Points | |
| by.ppp | Apply a Function to a Point Pattern Broken Down by Factor | |
| Gdot | Multitype Nearest Neighbour Distance Function (i-to-any) | |
| areadiff | Difference of Disc Areas | |
| as.tess | Convert Data To Tessellation | |
| cells | Biological Cells Point Pattern | |
| distmap.psp | Distance Map of Line Segment Pattern | |
| betacells | Beta Ganglion Cells in Cat Retina | |
| as.data.frame.ppp | Coerce Point Pattern to a Data Frame | |
| rescale.psp | Convert Line Segment Pattern to Another Unit of Length | |
| crossdist.psp | Pairwise distances between two different line segment patterns | |
| runifdisc | Generate N Uniform Random Points in a Disc | |
| Gest | Nearest Neighbour Distance Function G | |
| pairdist.psp | Pairwise distances between line segments | |
| selfcrossing.psp | Crossing Points in a Line Segment Pattern | |
| rescue.rectangle | Convert Window Back To Rectangle | |
| summary.im | Summarizing a Pixel Image | |
| closing.owin | Morphological Closing of a Window | |
| is.marked.ppp | Test Whether A Point Pattern is Marked | |
| SatPiece | Piecewise Constant Saturated Pairwise Interaction Point Process Model | |
| residuals.ppm | Residuals for Fitted Point Process Model | |
| rpoisppOnLines | Generate Poisson Point Pattern on Line Segments | |
| eval.hyper | Evaluate an Expression in Each Row of a Hyperframe | |
| as.ppp | Convert Data To Class ppp | |
| colourmap | Colour Lookup Tables | |
| urkiola | Urkiola Woods Point Pattern | |
| print.ppm | Print a Fitted Point Process Model | |
| as.data.frame.psp | Coerce Line Segment Pattern to a Data Frame | |
| levelset | Level Set of a Pixel Image | |
| plot.tess | Plot a tessellation | |
| mean.im | Mean, Median and Range of Pixel Values in an Image | |
| rMatClust | Simulate Matern Cluster Process | |
| km.rs | Kaplan-Meier and Reduced Sample Estimator using Histograms | |
| allstats | Calculate four standard summary functions of a point pattern. | |
| ganglia | Beta Ganglion Cells in Cat Retina, Old Version | |
| delaunay | Delaunay Triangulation of Point Pattern | |
| nnwhich | Nearest neighbour | |
| with.fv | Evaluate an Expression in a Function Table | |
| Ldot | Multitype L-function (i-to-any) | |
| clickppp | Interactively Add Points | |
| rlabel | Random Re-Labelling of Point Pattern | |
| rmhmodel.list | Define Point Process Model for Metropolis-Hastings Simulation. | |
| plot.fv | Plot Function Valuesn | |
| chorley | Chorley-Ribble Cancer Data | |
| Jmulti | Marked J Function | |
| MultiStraussHard | The Multitype/Hard Core Strauss Point Process Model | |
| StraussHard | The Strauss / Hard Core Point Process Model | |
| affine.owin | Apply Affine Transformation To Window | |
| Kdot.inhom | Inhomogeneous Multitype K Dot Function | |
| Kmulti | Marked K-Function | |
| affine.psp | Apply Affine Transformation To Line Segment Pattern | |
| AreaInter | The Area Interaction Point Process Model | |
| as.owin | Convert Data To Class owin | |
| as.rectangle | Window Frame | |
| rotate.owin | Rotate a Window | |
| Geyer | Geyer's Saturation Point Process Model | |
| applynbd | Apply Function to Every Neighbourhood in a Point Pattern | |
| anova.ppm | ANOVA for Fitted Point Process Models | |
| subset.listof | Extract or Replace Subset of a List of Things | |
| OrdThresh | Ord's Interaction model | |
| Linhom | L-function | |
| Saturated | Saturated Pairwise Interaction model | |
| alltypes | Calculate Summary Statistic for All Types in a Multitype Point Pattern | |
| Kest.fft | K-function using FFT | |
| coef.ppm | Coefficients of Fitted Point Process Model | |
| Jcross | Multitype J Function (i-to-j) | |
| setmarks | Set or Reset the Marks in a Point Pattern | |
| DiggleGratton | Diggle-Gratton model | |
| runifpointOnLines | Generate N Uniform Random Points On Line Segments | |
| unmark | Remove Marks | |
| as.matrix.im | Convert Pixel Image to Matrix | |
| interp.im | Interpolate a Pixel Image | |
| Jdot | Multitype J Function (i-to-any) | |
| distmap.owin | Distance Map of Window | |
| shift.im | Apply Vector Translation To Pixel Image | |
| angles.psp | Orientation Angles of Line Segments | |
| is.im | Test Whether An Object Is A Pixel Image | |
| eroded.areas | Areas of Morphological Erosions | |
| compatible.fasp | Test Whether Two Function Arrays Are Compatible | |
| fryplot | Fry Plot of Point Pattern | |
| persp.im | Perspective Plot of Pixel Image | |
| BadGey | Hybrid Geyer Point Process Model | |
| bramblecanes | Hutchings' Bramble Canes data | |
| bei | Tropical rain forest trees | |
| bdist.points | Distance to Boundary of Window | |
| Fest | Estimate the empty space function F | |
| blur | Apply Gaussian Blur to a Pixel Image | |
| Kinhom | Inhomogeneous K-function | |
| rescale.owin | Convert Window to Another Unit of Length | |
| im.object | Class of Images | |
| rmhcontrol | Set Control Parameters for Metropolis-Hastings Algorithm. | |
| as.psp | Convert Data To Class psp | |
| quadrats | Divide Region into Quadrats | |
| by.im | Apply Function to Image Broken Down by Factor | |
| [.tess | Extract or Replace Subset of Tessellation | |
| centroid.owin | Centroid of a window | |
| Gcross | Multitype Nearest Neighbour Distance Function (i-to-j) | |
| PairPiece | The Piecewise Constant Pairwise Interaction Point Process Model | |
| fv.object | Data Frames of Function Values | |
| No Results! | ||
Last month downloads
Details
| Date | 02 March 2009 |
| License | GPL (>= 2) |
| URL | http://www.spatstat.org |
| Packaged | Tue Mar 3 02:53:41 2009; adrian |
| depends | base (>= 2.7.0) , deldir (>= 0.0-7) , gpclib , graphics , mgcv , R (>= 2.7.0) , stats , utils |
| suggests | maptools , sm |
| Contributors | Rolf Turner, Adrian Baddeley |
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