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spatstat (version 1.13-3)

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

16,590

Version

1.13-3

License

GPL (>= 2)

Maintainer

Adrian Baddeley

Last Published

March 22nd, 2025

Functions in spatstat (1.13-3)

Simulate Simple Sequential Inhibition

Print a Fitted Point Process Model

Pair Correlation Function

Print Brief Details of an Image

Q-Q Plot of Residuals from Fitted Point Process Model

Simulate Gauss-Poisson Process

Generate grid of parallel lines with random displacement

rescue.rectangle

Convert Window Back To Rectangle

Generate Poisson Random Line Process

Plot a Spatial Window

pairwise.family

Pairwise Interaction Process Family

plot a Spatial Quadrature Scheme

Perfect Simulation of the Strauss Process

Plot a Function Array

rshift.splitppp

Randomly Shift a List of Point Patterns

Simulate Baddeley-Silverman Cell Process

plot.hyperframe

Plot Entries in a Hyperframe

Pair Correlation Function obtained from K Function

Print Brief Details of a Line Segment Pattern Dataset

plot a Spatial Line Segment Pattern

Simulate Matern Model II

Create a Window

Print Brief Details of a Spatial Window

Sufficient Statistic of Point Process Model

Class of Line Segment Patterns

Fit Point Process Model to Data

Create a Line Segment Pattern

Define Point Process Model for Metropolis-Hastings Simulation.

Class of Fitted Point Process Models

Compute Integral of Function Against Cumulative Distribution

Pairwise distances

Set Control Parameters for Metropolis-Hastings Algorithm.

Ponderosa Pine Tree Point Pattern

Perspective Plot of Pixel Image

Simulate Point Process Models using the Metropolis-Hastings Algorithm.

Generate N Random Points

rmhmodel.default

Build Point Process Model for Metropolis-Hastings Simulation.

plot a Spatial Point Pattern

California Redwoods Point Pattern (Ripley's Subset)

Pairwise distances between line segments

Generate N Random Multitype Points

Swedish Pines Point Pattern

Generate N Uniform Random Points in a Disc

Class of Point Patterns

Read Point Pattern From Data File

Sample Quantiles of Pixel Image

Generate a Quadrature Scheme from a Point Pattern

Estimate window from points alone

Convert Point Pattern to Another Unit of Length

pppmatching.object

Class of Point Matchings

Distance Between Two Point Patterns

Summary of a Point Pattern Dataset

Generate Poisson Point Pattern

Simulate Thomas Process

Reduced Sample Estimator using Histogram Data

Create a Point Matching

Randomly Shift a Point Pattern

Plot Function Valuesn

Apply Vector Translation To Point Pattern

Class of Quadrature Schemes

Plot a List of Things

Random Re-Labelling of Point Pattern

Extract or Replace Subset of Point Pattern

Simulate point patterns using the Metropolis-Hastings algorithm.

plot a Fitted Point Process Model

Plot a Pixel Image

Plot a List of Point Patterns

Simulate systematic random point pattern

Summarizing a Pixel Image

Simulate Matern Cluster Process

Residuals for Fitted Point Process Model

Simulate Neyman-Scott Process

Convert dataset to another unit of length

Print Progress Reports

Set or Reset the Marks in a Point Pattern

Profile Maximum Pseudolikelihood

Simulate Matern Model I

Spatial smoothing of observations at irregular points

Convert Line Segment Pattern to Another Unit of Length

Simulated Point Pattern

spatstat.options

Internal Options in Spatstat Package

Summarizing a Fitted Point Process Model

Interpret Fitted Model for Metropolis-Hastings Simulation.

pairdist.default

Pairwise distances

Print Brief Details of a Point Pattern Dataset

Extract or Replace Subset of a List of Things

Plot a plotppm Object Created by plot.ppm

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

Vertices of a Window

Determine Initial State for Metropolis-Hastings Simulation.

Apply Vector Translation

Simulate from a Fitted Point Process Model

Summary of a List of Things

Rotate a Point Pattern

summary.splitppp

Summary of a Split Point Pattern

Simulate Stratified Random Point Pattern

Rotate a Window

Saturated Pairwise Interaction Point Process Family

Quadrat counting for a point pattern

Prediction from a Fitted Point Process Model

Superimpose Several Point Patterns

Spruces Point Pattern

Variance-Covariance Matrix for a Fitted Point Process Model

Pairwise distances

Set Covariance of a Window

Randomly Shift a Line Segment Pattern

Convert Window to Another Unit of Length

Extract Unique Points from a Spatial Point Pattern

Rotate a Line Segment Pattern

Extract Subset of Function Array

Generate N Uniform Random Points

Interaction Distance of a Point Process

Apply Vector Translation To Pixel Image

Pair Correlation Function of Point Pattern

Define Point Process Model for Metropolis-Hastings Simulation.

Create a Point Pattern

Fit the Thomas Point Process by Minimum Contrast

Extract Subset of Image

California Redwoods Point Pattern (Entire Dataset)

Remove Marks from a Marked Point Pattern

Cartesian Coordinates for a Pixel Raster

selfcrossing.psp

Crossing Points in a Line Segment Pattern

Apply Vector Translation To Window

Extract Subset of Function Values

Apply Vector Translation To Line Segment Pattern

Summarizing a Quadrature Scheme

Pair Correlation Function obtained from array of K functions

Data and Code From JRSS Discussion Paper on Residuals

Random Perturbation of a Point Pattern

Generate Multitype Poisson Point Pattern

Divide Point Pattern into Sub-patterns

The Spatstat Package

Multitype J Function (i-to-any)

Marked K-Function

Random Thinning

Evaluate an Expression in a Function Table

Spokes pattern of dummy points

Summary of a Line Segment Pattern Dataset

Cut margins from rectangle

Update a Fitted Point Process Model

Reset Values in Subset of Image

Extract Dummy Points Used to Fit a Point Process Model

Poisson Point Process Model

Summary of a Spatial Window

Convert Data To Class ppp

Name for Unit of Length

Union of Data and Dummy Points

inforder.family

Infinite Order Interaction Family

Print a Quadrature Scheme

Extract Quadrature Scheme Used to Fit a Point Process Model

Inhomogeneous Cross K Function

Extract Subset of Line Segment Pattern

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

Interpolate a Pixel Image

subset.splitppp

Extract or Replace Sub-Patterns

The Soft Core Point Process Model

Determine Whether One Window is Contained In Another

model.matrix.ppm

Extract Design Matrix from Point Process Model

Beta Ganglion Cells in Cat Retina

Inhomogeneous K-function

Apply Gaussian Blur to a Pixel Image

bounding.box.xy

Convex Hull of Points

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

Apply Function to Every Neighbourhood in a Point Pattern

Concatenate x,y Coordinate Vectors

Inhomogeneous Multitype K Dot Function

Estimate the empty space function F

Convert Point Pattern Marks from Numeric to Factor

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

Multitype L-function (cross-type)

The Area Interaction Point Process Model

Diggle-Gratton model

MultiStraussHard

The Multitype/Hard Core Strauss Point Process Model

Rectangular grid of points

Nearest Neighbour Distance Function G

Piecewise Constant Saturated Pairwise Interaction Point Process Model

Multitype L-function (i-to-any)

Apply Affine Transformation To Line Segment Pattern

Contour plot of pixel image

Distance Map of Window

Simulation envelopes of summary function

Interactively Add Points

Aherne's hamster tumour data

Hybrid Geyer Point Process Model

Generic Pairwise Interaction model

Area of a Window

Japanese Pines Point Pattern

Beadlet Anemones Data

Neighbourhood density function

Window in Shape of Letter R

Combine Two Line Segment Patterns

Multitype K Function (i-to-any)

Convert Data To Class psp

Kaplan-Meier Estimator using Histogram Data

The Strauss Point Process Model

Kolmogorov-Smirnov Test for Point Process Model

Class of Images

is.multitype.ppp

Test Whether A Point Pattern is Multitype

The Lennard-Jones Potential

compatible.fasp

Test Whether Two Function Arrays Are Compatible

Calculate Summary Statistic for All Types in a Multitype Point Pattern

Test Whether Two Function Objects Are Compatible

Areas of Morphological Erosions

Beta Ganglion Cells in Cat Retina, Old Version

Pine saplings in Finland.

Kernel Smoothing of Line Segment Pattern

Calculate four standard summary functions of a point pattern.

Hutchings' Bramble Canes data

Corners of a rectangle

Distance to Boundary of Window

Convert Pixel Image to Matrix

Convert Data To Class owin

Mean Pixel Value in an Image

Endpoints of Line Segment Pattern

Pairwise distances between two different line segment patterns

Marked Nearest Neighbour Distance Function

Test Whether An Object Is A Point Pattern

Test Whether A Point Pattern is Marked

Apply Affine Transformation To Window

Hughes' Amacrine Cell Data

Centroid of a window

Geyer's Saturation Point Process Model

Chorley-Ribble Cancer Data

Multitype J Function (i-to-j)

Dilate a Window

Extract Original Data from a Fitted Point Process Model

Determine Duplicated Points in a Spatial Point Pattern

Safely Convert Point Pattern Window to Binary Mask

complement.owin

Take Complement of a Window

Estimate the I-function

Data Frames of Function Values

New Zealand Trees Point Pattern

Weighted Empirical Cumulative Distribution Function

Evaluate an Expression in Each Row of a Hyperframe

Test Whether An Object Is A Pixel Image

Distance to Boundary of Window

Humberside Data on Childhood Leukaemia and Lymphoma

Basis for Harmonic Functions

Diagnostic Plots for Fitted Point Process Model

ANOVA for Fitted Point Process Models

Test Whether Marks Are Present

Multitype K Function (Cross-type)

Pairwise distances between two different point patterns

Lengths of Line Segments

Evaluate Expression Involving Functions

Test Whether A Point Process Model is Marked

Generate a Default Pattern of Dummy Points

Level Set of a Pixel Image

Expand Window By Factor

Exponential Energy Marks

Kaplan-Meier and Reduced Sample Estimator using Histograms

Compute Images of Constructed Covariates

Fitted Conditional Intensity for Point Process Model

K-function using FFT

crossdist.default

Pairwise distances between two different sets of points

Create a Pixel Image Object

multiplicity.ppp

Count Multiplicity of Duplicate Points

Nearest neighbour distances between line segments

Ord Interaction Process Family

Apply Affine Transformation To Point Pattern

Orientation Angles of Line Segments

Estimate the J-function

Summarise Marks in Every Neighbourhood in a Point Pattern

Point Patterns of New Brunswick Forest Fires

Marked J Function

Biological Cells Point Pattern

Distance for a Point Pattern Matching

Reduced Second Moment Measure

Function Arrays for Spatial Patterns

Difference of Disc Areas

Artificial Data Point Pattern

Nearest neighbour

Log Likelihood for Poisson Point Process Model

Histogram of Pixel Values in an Image

The Piecewise Constant Pairwise Interaction Point Process Model

Clark and Evans Aggregation Index

Test Whether Two Pixel Images Are Compatible

Convert Pixel Image from Numeric to Factor

Compute Quadrature Weights Based on Grid Counts

Distance Map of Line Segment Pattern

Convert to Pixel Image

density.splitppp

Kernel Smoothed Intensity of Split Point Pattern

Saturated Pairwise Interaction model

The Multitype Strauss Point Process Model

Crossing Points of Two Line Segment Patterns

Nearest-Neighbour Correlation of Marked Point Pattern

Pixel Image Approximation of a Window

is.multitype.ppm

Test Whether A Point Process Model is Multitype

Interactively Define a Polygon

The Strauss / Hard Core Point Process Model

Distance Map of Point Pattern

spatstat-deprecated

Deprecated spatstat functions

Tropical rain forest trees

Convex Hull of Points

Pairwise distances

Method of Minimum Contrast

Generic Ord Interaction model

Nearest Neighbour in Another Point Pattern

Ord's Interaction model

Test whether Object is Multitype

Lurking variable plot

Harkness-Isham ants' nests data

Apply Affine Transformation

Evaluate Expression Involving Function Arrays

Evaluate Expression Involving Pixel Images

Fit the Matern Cluster Point Process by Minimum Contrast

Diameter of a Window

Longleaf Pines Point Pattern

nearest.raster.point

Find Pixel Nearest to a Given Point

Hyper Data Frame

Coefficients of Fitted Point Process Model

Intersection or Union of Two Windows

Berman-Huntington points and lines data

as.data.frame.ppp

Coerce Point Pattern to a Data Frame

Kernel Smoothed Intensity of Point Pattern

Bounding Box of a Window or Point Pattern

Extract the Interaction from a Fitted Point Process Model

dirichlet.weights

Compute Quadrature Weights Based on Dirichlet Tessellation

Identify Points in a Point Pattern

Test Whether An Object Is A Fitted Point Process Model

Circular Window

Fit a Log-Gaussian Cox Point Process by Minimum Contrast

Lansing Woods Point Pattern

Test Whether An Object Is A Window

spatstat-internal

Internal spatstat functions

Tabulate Marks in Neighbourhood of Every Point in a Point Pattern

Nearest neighbour distances

Test Whether Points Are Inside A Window

Midpoints of Line Segment Pattern

Mark Correlation Function