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spatstat (version 1.11-7)

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 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

1.11-7

License

GPL version 2 or newer

Maintainer

Adrian Baddeley

Last Published

March 22nd, 2025

Functions in spatstat (1.11-7)

Reduced Second Moment Measure

Apply Affine Transformation

Beta Ganglion Cells in Cat Retina, Old Version

Convert Pixel Image to Matrix

Calculate four standard summary functions of a point pattern.

Histogram of Pixel Values in an Image

Data Frames of Function Values

Marked K-Function

Weighted Empirical Cumulative Distribution Function

Geyer's Saturation Point Process Model

The Spatstat Package

Calculate Statistic for All Types in a Multitype Point Pattern

Nearest Neighbour Distance Function G

The Piecewise Constant Pairwise Interaction Point Process Model

Biological Cells Point Pattern

Extract Original Data from a Fitted Point Process Model

Multitype K Function (Cross-type)

Combine Two Line Segment Patterns

Convert Point Pattern Marks from Numeric to Factor

Area of a Window

Apply Affine Transformation To Window

Estimate the I-function

bounding.box.xy

Convex Hull of Points

Rectangular grid of points

ANOVA for Fitted Point Process Models

Convert Data To Class ppp

Diggle-Gratton model

Test Whether A Point Pattern is Marked

Diameter of a Window

Generate a Default Pattern of Dummy Points

Class of Quadrature Schemes

is.multitype.ppp

Test Whether A Point Pattern is Multitype

Circular Window

Test Whether An Object Is A Fitted Point Process Model

Create a Window

Simulate Matern Model I

Interactively Add Points

Identify Points in a Point Pattern

Extract Dummy Points Used to Fit a Point Process Model

Interpolate a Pixel Image

spatstat-deprecated

Deprecated spatstat functions

plot a Spatial Point Pattern

Beta Ganglion Cells in Cat Retina

California Redwoods Point Pattern (Entire Dataset)

Exponential Energy Marks

Test Whether Points Are Inside A Window

Berman-Huntington points and lines data

Class of Images

Plot a plotppm Object Created by plot.ppm

California Redwoods Point Pattern (Ripley's Subset)

Saturated Pairwise Interaction model

Test Whether An Object Is A Window

Compute Quadrature Weights Based on Grid Counts

Simulate Baddeley-Silverman Cell Process

Simulate Matern Model II

Bounding Box of a Window or Point Pattern

Create a Pixel Image Object

Simulate Matern Cluster Process

Rotate a Point Pattern

Intersection or Union of Two Windows

Residuals for Fitted Point Process Model

nearest.raster.point

Find Pixel Nearest to a Given Point

Simulate Thomas Process

Estimate window from points alone

Simulate systematic random point pattern

rshift.splitppp

Randomly Shift a List of Point Patterns

Perfect Simulation of the Strauss Process

Test Whether An Object Is A Pixel Image

Divide Point Pattern into Sub-patterns

Fit Point Process Model to Data

Simulate Simple Sequential Inhibition

Mean Pixel Value in an Image

Plot a List of Point Patterns

Simulated Point Pattern

is.multitype.ppm

Test Whether A Point Process Model is Multitype

Test Whether Marks Are Present

Pairwise distances

Print Brief Details of a Spatial Window

Set or Reset the Marks in a Point Pattern

Summary of a List of Things

pairwise.family

Pairwise Interaction Process Family

Pairwise distances

Ord Interaction Process Family

Optimal Match Between Two Point Patterns

Class of Line Segment Patterns

Print Brief Details of a Line Segment Pattern Dataset

Estimate the J-function

rmhmodel.default

Build Point Process Model for Metropolis-Hastings Simulation.

Generate a Quadrature Scheme from a Point Pattern

Plot a Pixel Image

Create a Line Segment Pattern

Level Set of a Pixel Image

rescue.rectangle

Convert Window Back To Rectangle

plot a Spatial Quadrature Scheme

Extract or Replace Subset of Point Pattern

Fit the Thomas Point Process by Minimum Contrast

Data and Code From JRSS Discussion Paper on Residuals

Simulate from a Fitted Point Process Model

Rotate a Line Segment Pattern

Extract or Replace Subset of a List of Things

Spruces Point Pattern

Generate Poisson Random Line Process

Apply Vector Translation To Line Segment Pattern

K-function using FFT

Interactively Define a Polygon

Generate Multitype Poisson Point Pattern

summary.splitppp

Summary of a Split Point Pattern

Summary of a Line Segment Pattern Dataset

Pixel Image Approximation of a Window

Orientation Angles of Line Segments

Print a Quadrature Scheme

Apply Function to Every Neighbourhood in a Point Pattern

Extract Quadrature Scheme Used to Fit a Point Process Model

Pair Correlation Function obtained from array of K functions

Test Whether Two Pixel Images Are Compatible

crossdist.default

Pairwise distances between two different sets of points

Test Whether Two Function Objects Are Compatible

Apply Affine Transformation To Line Segment Pattern

Convert Line Segment Pattern to Another Unit of Length

Multitype K Function (i-to-any)

Kernel Smoothed Intensity of Point Pattern

Perspective Plot of Pixel Image

Generic Pairwise Interaction model

Pairwise distances

Expand Window By Factor

Corners of a rectangle

multiplicity.ppp

Count Multiplicity of Duplicate Points

Midpoints of Line Segment Pattern

MultiStraussHard

The Multitype/Hard Core Strauss Point Process Model

dirichlet.weights

Compute Quadrature Weights Based on Dirichlet Tessellation

Endpoints of Line Segment Pattern

Kolmogorov-Smirnov Test for Point Process Model

Lengths of Line Segments

Japanese Pines Point Pattern

Pair Correlation Function

New Zealand Trees Point Pattern

Centroid of a window

Extract Subset of Function Values

Interaction Distance of a Point Process

Randomly Shift a Point Pattern

Convex Hull of Points

Extract Subset of Image

Simulate Point Process Models using the Metropolis-Hastings Algorithm.

Summarise Marks in Every Neighbourhood in a Point Pattern

Method of Minimum Contrast

Determine Whether One Window is Contained In Another

Generate Poisson Point Pattern

density.splitppp

Kernel Smoothed Intensity of Split Point Pattern

Nearest neighbour distances between line segments

Simulation envelopes of summary function

Apply Vector Translation To Point Pattern

Safely Convert Point Pattern Window to Binary Mask

Print Brief Details of a Point Pattern Dataset

Generate N Uniform Random Points

Plot a Spatial Window

Convert Point Pattern to Another Unit of Length

Extract Subset of Line Segment Pattern

Union of Data and Dummy Points

Test whether Object is Multitype

Cut margins from rectangle

Generate grid of parallel lines with random displacement

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

Convert dataset to another unit of length

Extract Subset of Function Array

Random Thinning

Simulate Stratified Random Point Pattern

Vertices of a Window

Swedish Pines Point Pattern

Pairwise distances between two different line segment patterns

Convert to Pixel Image

Humberside Data on Childhood Leukaemia and Lymphoma

Kaplan-Meier and Reduced Sample Estimator using Histograms

Lansing Woods Point Pattern

Plot a Function Array

Create a Point Pattern

Marked Nearest Neighbour Distance Function

Marked J Function

plot a Fitted Point Process Model

Determine Initial State for Metropolis-Hastings Simulation.

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

Variance-Covariance Matrix for a Fitted Point Process Model

Inhomogeneous K-function

The Lennard-Jones Potential

Distance Map of Window

Contour plot of pixel image

Determine Duplicated Points in a Spatial Point Pattern

Read Point Pattern From Data File

Apply Affine Transformation To Point Pattern

Convert Data To Class owin

Artificial Data Point Pattern

Crossing Points of Two Line Segment Patterns

Concatenate x,y Coordinate Vectors

Distance Map of Point Pattern

Harkness-Isham ants' nests data

Extract the Interaction from a Fitted Point Process Model

Longleaf Pines Point Pattern

Prediction from a Fitted Point Process Model

Aherne's hamster tumour data

Profile Maximum Pseudolikelihood

Reduced Sample Estimator using Histogram Data

Window in Shape of Letter R

selfcrossing.psp

Crossing Points in a Line Segment Pattern

Lurking variable plot

Pair Correlation Function of Point Pattern

Apply Vector Translation

Superimpose Several Point Patterns

Update a Fitted Point Process Model

Set Covariance of a Window

Print Progress Reports

Cartesian Coordinates for a Pixel Raster

spatstat.options

Internal Options in Spatstat Package

Q-Q Plot of Residuals from Fitted Point Process Model

Randomly Shift a Line Segment Pattern

Apply Vector Translation To Window

Remove Marks from a Marked Point Pattern

The Strauss Point Process Model

Distance to Boundary of Window

Mark Correlation Function

Dilate a Window

Evaluate Expression Involving Functions

Basis for Harmonic Functions

Log Likelihood for Poisson Point Process Model

Fit a Log-Gaussian Cox Point Process by Minimum Contrast

Nearest Neighbour in Another Point Pattern

Simulate Neyman-Scott Process

Nearest neighbour

Generate N Uniform Random Points in a Disc

Define Point Process Model for Metropolis-Hastings Simulation.

Summary of a Point Pattern Dataset

Reset Values in Subset of Image

Summary of a Spatial Window

Convert Data To Class psp

Pairwise distances between two different point patterns

Evaluate Expression Involving Pixel Images

Plot a List of Things

Generate N Random Multitype Points

Interpret Fitted Model for Metropolis-Hastings Simulation.

Name for Unit of Length

subset.splitppp

Extract or Replace Sub-Patterns

Estimate the empty space function F

Multitype J Function (i-to-any)

Multitype J Function (i-to-j)

Inhomogeneous Multitype K Dot Function

The Soft Core Point Process Model

Distance Map of Line Segment Pattern

Fitted Conditional Intensity for Point Process Model

spatstat-internal

Internal spatstat functions

pairdist.default

Pairwise distances

Pair Correlation Function obtained from K Function

Plot Function Valuesn

Print Brief Details of an Image

Random Re-Labelling of Point Pattern

Generate N Random Points

Summarizing a Fitted Point Process Model

Extract Unique Points from a Spatial Point Pattern

Set Control Parameters for Metropolis-Hastings Algorithm.

Define Point Process Model for Metropolis-Hastings Simulation.

Tropical rain forest trees

Inhomogeneous Cross K Function

Kernel Smoothing of Line Segment Pattern

Nearest-Neighbour Correlation of Marked Point Pattern

Hughes' Amacrine Cell Data

Class of Fitted Point Process Models

Fit the Matern Cluster Point Process by Minimum Contrast

Poisson Point Process Model

Rotate a Window

Kaplan-Meier Estimator using Histogram Data

Diagnostic Plots for Fitted Point Process Model

Beadlet Anemones Data

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

Test Whether An Object Is A Point Pattern

Convert Pixel Image from Numeric to Factor

Convert Window to Another Unit of Length

Apply Vector Translation To Pixel Image

Summarizing a Pixel Image

Saturated Pairwise Interaction Point Process Family

Sample Quantiles of Pixel Image

Generic Ord Interaction model

Chorley-Ribble Cancer Data

The Multitype Strauss Point Process Model

Pairwise distances between line segments

Distance to Boundary of Window

Point Patterns of New Brunswick Forest Fires

Function Arrays for Spatial Patterns

plot a Spatial Line Segment Pattern

Coefficients of Fitted Point Process Model

Spokes pattern of dummy points

Ord's Interaction model

The Strauss / Hard Core Point Process Model

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

Pine saplings in Finland.

Clark and Evans Aggregation Index

Test Whether A Point Process Model is Marked

Areas of Morphological Erosions

Nearest neighbour distances

Print a Fitted Point Process Model

Simulate point patterns using the Metropolis-Hastings algorithm.

Class of Point Patterns

Summarizing a Quadrature Scheme

Sufficient Statistic of Point Process Model

Hutchings' Bramble Canes data

complement.owin

Take Complement of a Window

Quadrat counting for a point pattern