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spatstat (version 1.13-1)

Spatial Point Pattern analysis, model-fitting, simulation, tests

Description

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).

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Version

Install

install.packages('spatstat')

Monthly Downloads

18,534

Version

1.13-1

License

GPL (>= 2)

Maintainer

Adrian Baddeley

Last Published

March 22nd, 2025

Functions in spatstat (1.13-1)

bounding.box.xy

Convex Hull of Points

Inhomogeneous K-function

Test Whether Two Pixel Images Are Compatible

The Strauss Point Process Model

Inhomogeneous Multitype K Dot Function

Test Whether Two Function Objects Are Compatible

Marked K-Function

Multitype K Function (Cross-type)

Estimate the J-function

Marked Nearest Neighbour Distance Function

The Lennard-Jones Potential

Generic Pairwise Interaction model

Compute Quadrature Weights Based on Grid Counts

Multitype J Function (i-to-any)

Diggle-Gratton model

Generic Ord Interaction model

Estimate the empty space function F

Multitype Nearest Neighbour Distance Function (i-to-any)

The Multitype Strauss Point Process Model

Calculate Statistic for All Types in a Multitype Point Pattern

Poisson Point Process Model

Apply Affine Transformation To Window

as.data.frame.ppp

Coerce Point Pattern to a Data Frame

Reduced Second Moment Measure

MultiStraussHard

The Multitype/Hard Core Strauss Point Process Model

Simulation envelopes of summary function

Artificial Data Point Pattern

Inhomogeneous Cross K Function

Saturated Pairwise Interaction model

Apply Affine Transformation To Point Pattern

Hutchings' Bramble Canes data

Apply Function to Every Neighbourhood in a Point Pattern

Convert Point Pattern Marks from Numeric to Factor

Longleaf Pines Point Pattern

ANOVA for Fitted Point Process Models

Nearest Neighbour Distance Function G

The Piecewise Constant Pairwise Interaction Point Process Model

Geyer's Saturation Point Process Model

Convert Pixel Image from Numeric to Factor

Area of a Window

Combine Two Line Segment Patterns

Berman-Huntington points and lines data

Multitype K Function (i-to-any)

complement.owin

Take Complement of a Window

Distance Map of Line Segment Pattern

Test Whether Marks Are Present

Marked J Function

The Strauss / Hard Core Point Process Model

Ord's Interaction model

Convert Data To Class owin

Bounding Box of a Window or Point Pattern

Apply Affine Transformation

Calculate four standard summary functions of a point pattern.

Centroid of a window

Corners of a rectangle

Determine Duplicated Points in a Spatial Point Pattern

Neighbourhood density function

Orientation Angles of Line Segments

Pixel Image Approximation of a Window

Extract Original Data from a Fitted Point Process Model

Weighted Empirical Cumulative Distribution Function

Piecewise Constant Saturated Pairwise Interaction Point Process Model

Biological Cells Point Pattern

Convert to Pixel Image

Pine saplings in Finland.

spatstat-deprecated

Deprecated spatstat functions

The Soft Core Point Process Model

Estimate the I-function

Difference of Disc Areas

Kaplan-Meier and Reduced Sample Estimator using Histograms

The Spatstat Package

Interactively Define a Polygon

Test Whether A Point Process Model is Marked

Chorley-Ribble Cancer Data

Apply Affine Transformation To Line Segment Pattern

Dilate a Window

Tropical rain forest trees

Convert Data To Class psp

Convert Pixel Image to Matrix

Plot Function Valuesn

Concatenate x,y Coordinate Vectors

Beadlet Anemones Data

Pairwise distances between two different point patterns

Contour plot of pixel image

Evaluate an Expression in Each Row of a Hyperframe

Kernel Smoothing of Line Segment Pattern

Mean Pixel Value in an Image

Convert Data To Class ppp

Kernel Smoothed Intensity of Point Pattern

Distance Map of Point Pattern

Test Whether Points Are Inside A Window

Extract or Replace Subset of Point Pattern

Distance to Boundary of Window

Extract Dummy Points Used to Fit a Point Process Model

Hybrid Geyer Point Process Model

Multitype Nearest Neighbour Distance Function (i-to-j)

Basis for Harmonic Functions

Beta Ganglion Cells in Cat Retina, Old Version

Interactively Add Points

Pairwise distances

Circular Window

Pair Correlation Function obtained from K Function

K-function using FFT

Multitype J Function (i-to-j)

Distance to Boundary of Window

Rectangular grid of points

Summarise Marks in Every Neighbourhood in a Point Pattern

Pairwise distances between two different line segment patterns

Nearest neighbour distances

Create a Pixel Image Object

Crossing Points of Two Line Segment Patterns

Prediction from a Fitted Point Process Model

Diagnostic Plots for Fitted Point Process Model

inforder.family

Infinite Order Interaction Family

dirichlet.weights

Compute Quadrature Weights Based on Dirichlet Tessellation

Test whether Object is Multitype

The Area Interaction Point Process Model

Coefficients of Fitted Point Process Model

Harkness-Isham ants' nests data

Method of Minimum Contrast

Hughes' Amacrine Cell Data

Aherne's hamster tumour data

Distance Map of Window

Function Arrays for Spatial Patterns

Data Frames of Function Values

Simulate Simple Sequential Inhibition

Exponential Energy Marks

Pair Correlation Function

Mark Correlation Function

Histogram of Pixel Values in an Image

Diameter of a Window

Extract the Interaction from a Fitted Point Process Model

Create a Window

Pairwise distances

Generate a Default Pattern of Dummy Points

Lurking variable plot

Test Whether A Point Pattern is Marked

Reset Values in Subset of Image

Beta Ganglion Cells in Cat Retina

Convex Hull of Points

Clark and Evans Aggregation Index

is.multitype.ppm

Test Whether A Point Process Model is Multitype

Point Patterns of New Brunswick Forest Fires

Test Whether An Object Is A Fitted Point Process Model

Rotate a Point Pattern

Window in Shape of Letter R

Test Whether An Object Is A Pixel Image

Cut margins from rectangle

Test Whether An Object Is A Point Pattern

Reduced Sample Estimator using Histogram Data

multiplicity.ppp

Count Multiplicity of Duplicate Points

Estimate window from points alone

Print Brief Details of a Point Pattern Dataset

Lansing Woods Point Pattern

Hyper Data Frame

Japanese Pines Point Pattern

Nearest-Neighbour Correlation of Marked Point Pattern

Midpoints of Line Segment Pattern

Create a Point Matching

New Zealand Trees Point Pattern

Kaplan-Meier Estimator using Histogram Data

Variance-Covariance Matrix for a Fitted Point Process Model

nearest.raster.point

Find Pixel Nearest to a Given Point

Pair Correlation Function obtained from array of K functions

Endpoints of Line Segment Pattern

Identify Points in a Point Pattern

Fitted Conditional Intensity for Point Process Model

pairwise.family

Pairwise Interaction Process Family

Log Likelihood for Poisson Point Process Model

Level Set of a Pixel Image

Nearest Neighbour in Another Point Pattern

is.multitype.ppp

Test Whether A Point Pattern is Multitype

Ord Interaction Process Family

Distance for a Point Pattern Matching

Plot a Spatial Window

Print Progress Reports

Pairwise distances between line segments

crossdist.default

Pairwise distances between two different sets of points

spatstat-internal

Internal spatstat functions

Tabulate Marks in Neighbourhood of Every Point in a Point Pattern

Print Brief Details of an Image

Fit Point Process Model to Data

density.splitppp

Kernel Smoothed Intensity of Split Point Pattern

Areas of Morphological Erosions

Safely Convert Point Pattern Window to Binary Mask

rescue.rectangle

Convert Window Back To Rectangle

Class of Images

Distance Between Two Point Patterns

Perfect Simulation of the Strauss Process

Simulate systematic random point pattern

Simulate Thomas Process

Determine Whether One Window is Contained In Another

Fit the Matern Cluster Point Process by Minimum Contrast

Remove Marks from a Marked Point Pattern

Create a Point Pattern

Generate N Uniform Random Points in a Disc

Kolmogorov-Smirnov Test for Point Process Model

Convert Window to Another Unit of Length

Intersection or Union of Two Windows

Evaluate Expression Involving Functions

Humberside Data on Childhood Leukaemia and Lymphoma

Nearest neighbour distances between line segments

Expand Window By Factor

Simulate Point Process Models using the Metropolis-Hastings Algorithm.

Randomly Shift a Point Pattern

Q-Q Plot of Residuals from Fitted Point Process Model

Nearest neighbour

Lengths of Line Segments

Pairwise distances

Sample Quantiles of Pixel Image

Evaluate Expression Involving Pixel Images

Test Whether An Object Is A Window

Pair Correlation Function of Point Pattern

Plot a Pixel Image

model.matrix.ppm

Extract Design Matrix from Point Process Model

Plot a Function Array

Class of Quadrature Schemes

Chi-Squared Dispersion Test for Spatial Point Pattern Based on Quadrat Counts

plot a Spatial Quadrature Scheme

Simulate Matern Model II

Print a Fitted Point Process Model

plot.hyperframe

Plot Entries in a Hyperframe

Apply Vector Translation To Line Segment Pattern

Set Control Parameters for Metropolis-Hastings Algorithm.

Compute Integral of Function Against Cumulative Distribution

Simulate Stratified Random Point Pattern

subset.splitppp

Extract or Replace Sub-Patterns

Simulate from a Fitted Point Process Model

Saturated Pairwise Interaction Point Process Family

plot a Spatial Point Pattern

selfcrossing.psp

Crossing Points in a Line Segment Pattern

Data and Code From JRSS Discussion Paper on Residuals

Class of Point Patterns

Quadrat counting for a point pattern

Print Brief Details of a Line Segment Pattern Dataset

Swedish Pines Point Pattern

Spatial smoothing of observations at irregular points

Fit a Log-Gaussian Cox Point Process by Minimum Contrast

Update a Fitted Point Process Model

pairdist.default

Pairwise distances

Simulate Gauss-Poisson Process

plot a Spatial Line Segment Pattern

Random Re-Labelling of Point Pattern

Class of Line Segment Patterns

pppmatching.object

Class of Point Matchings

Plot a List of Things

Plot a plotppm Object Created by plot.ppm

Apply Vector Translation To Point Pattern

Summary of a Spatial Window

Print a Quadrature Scheme

Random Thinning

Name for Unit of Length

Determine Initial State for Metropolis-Hastings Simulation.

Simulate Matern Model I

Print Brief Details of a Spatial Window

Ponderosa Pine Tree Point Pattern

Interpret Fitted Model for Metropolis-Hastings Simulation.

Spokes pattern of dummy points

Simulate Matern Cluster Process

Interaction Distance of a Point Process

Summarizing a Pixel Image

Residuals for Fitted Point Process Model

Rotate a Window

Simulate Baddeley-Silverman Cell Process

Randomly Shift a Line Segment Pattern

Class of Fitted Point Process Models

Extract Subset of Image

Extract Subset of Function Array

spatstat.options

Internal Options in Spatstat Package

Perspective Plot of Pixel Image

Simulate Neyman-Scott Process

Read Point Pattern From Data File

Generate Multitype Poisson Point Pattern

California Redwoods Point Pattern (Ripley's Subset)

Plot a List of Point Patterns

Compute Images of Constructed Covariates

Apply Vector Translation

Simulate point patterns using the Metropolis-Hastings algorithm.

Extract Quadrature Scheme Used to Fit a Point Process Model

Generate a Quadrature Scheme from a Point Pattern

Convert Point Pattern to Another Unit of Length

rmhmodel.default

Build Point Process Model for Metropolis-Hastings Simulation.

Generate Poisson Random Line Process

Define Point Process Model for Metropolis-Hastings Simulation.

Define Point Process Model for Metropolis-Hastings Simulation.

plot a Fitted Point Process Model

rshift.splitppp

Randomly Shift a List of Point Patterns

Union of Data and Dummy Points

Interpolate a Pixel Image

Generate grid of parallel lines with random displacement

Extract Unique Points from a Spatial Point Pattern

Simulated Point Pattern

Convert Line Segment Pattern to Another Unit of Length

Set or Reset the Marks in a Point Pattern

Set Covariance of a Window

Generate N Random Points

Create a Line Segment Pattern

Extract Subset of Line Segment Pattern

Profile Maximum Pseudolikelihood

Generate Poisson Point Pattern

Sufficient Statistic of Point Process Model

Convert dataset to another unit of length

Extract or Replace Subset of a List of Things

Rotate a Line Segment Pattern

Superimpose Several Point Patterns

Apply Vector Translation To Pixel Image

Fit the Thomas Point Process by Minimum Contrast

Generate N Uniform Random Points

Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True

Vertices of a Window

Generate N Random Multitype Points

Apply Vector Translation To Window

Summary of a List of Things

California Redwoods Point Pattern (Entire Dataset)

Cartesian Coordinates for a Pixel Raster

Summary of a Line Segment Pattern Dataset

Spruces Point Pattern

Summarizing a Quadrature Scheme

Divide Point Pattern into Sub-patterns

Summary of a Point Pattern Dataset

Extract Subset of Function Values

Summarizing a Fitted Point Process Model

summary.splitppp

Summary of a Split Point Pattern