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spatstat (version 1.12-5)

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

16,015

Version

1.12-5

License

GPL (>= 2)

Maintainer

Adrian Baddeley

Last Published

March 22nd, 2025

Functions in spatstat (1.12-5)

Diggle-Gratton model

Generic Ord Interaction model

Beadlet Anemones Data

Geyer's Saturation Point Process Model

Nearest Neighbour Distance Function G

The Spatstat Package

Multitype J Function (i-to-any)

The Multitype Strauss Point Process Model

Tropical rain forest trees

Inhomogeneous K-function

The Soft Core Point Process Model

Chorley-Ribble Cancer Data

Estimate the J-function

The Strauss Point Process Model

Distance to Boundary of Window

Saturated Pairwise Interaction model

Apply Function to Every Neighbourhood in a Point Pattern

Convert Pixel Image to Matrix

K-function using FFT

Convert Point Pattern Marks from Numeric to Factor

Corners of a rectangle

Contour plot of pixel image

The Strauss / Hard Core Point Process Model

Convert Data To Class owin

bounding.box.xy

Convex Hull of Points

Evaluate Expression Involving Pixel Images

Multitype K Function (i-to-any)

Area of a Window

Apply Affine Transformation To Window

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

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

Centroid of a window

The Piecewise Constant Pairwise Interaction Point Process Model

Determine Duplicated Points in a Spatial Point Pattern

Multitype J Function (i-to-j)

Class of Images

The Lennard-Jones Potential

Function Arrays for Spatial Patterns

Convert Data To Class ppp

Convert Data To Class psp

Test Whether Two Pixel Images Are Compatible

Histogram of Pixel Values in an Image

Convex Hull of Points

Bounding Box of a Window or Point Pattern

Endpoints of Line Segment Pattern

Inhomogeneous Cross K Function

Midpoints of Line Segment Pattern

Apply Affine Transformation To Line Segment Pattern

Extract Dummy Points Used to Fit a Point Process Model

Pairwise distances between two different point patterns

Dilate a Window

Marked Nearest Neighbour Distance Function

Level Set of a Pixel Image

Weighted Empirical Cumulative Distribution Function

Test Whether A Point Process Model is Marked

Beta Ganglion Cells in Cat Retina

Class of Point Patterns

Areas of Morphological Erosions

Concatenate x,y Coordinate Vectors

Plot Function Valuesn

Ord's Interaction model

Convert to Pixel Image

Convert Pixel Image from Numeric to Factor

Biological Cells Point Pattern

Interactively Add Points

Harkness-Isham ants' nests data

Lansing Woods Point Pattern

is.multitype.ppm

Test Whether A Point Process Model is Multitype

ANOVA for Fitted Point Process Models

Inhomogeneous Multitype K Dot Function

Pair Correlation Function

Circular Window

Generic Pairwise Interaction model

Convert dataset to another unit of length

Distance Map of Line Segment Pattern

Reduced Second Moment Measure

Safely Convert Point Pattern Window to Binary Mask

Evaluate an Expression in Each Row of a Hyperframe

Simulate systematic random point pattern

Combine Two Line Segment Patterns

Marked J Function

Artificial Data Point Pattern

Hutchings' Bramble Canes data

Calculate Statistic for All Types in a Multitype Point Pattern

Pine saplings in Finland.

MultiStraussHard

The Multitype/Hard Core Strauss Point Process Model

as.data.frame.ppp

Coerce Point Pattern to a Data Frame

Hughes' Amacrine Cell Data

Pixel Image Approximation of a Window

Test Whether Two Function Objects Are Compatible

Interactively Define a Polygon

Poisson Point Process Model

Intersection or Union of Two Windows

Create a Pixel Image Object

complement.owin

Take Complement of a Window

Clark and Evans Aggregation Index

Marked K-Function

Multitype K Function (Cross-type)

crossdist.default

Pairwise distances between two different sets of points

Distance to Boundary of Window

Log Likelihood for Poisson Point Process Model

Berman-Huntington points and lines data

is.multitype.ppp

Test Whether A Point Pattern is Multitype

Basis for Harmonic Functions

Diagnostic Plots for Fitted Point Process Model

Distance Map of Point Pattern

Expand Window By Factor

Humberside Data on Childhood Leukaemia and Lymphoma

Data Frames of Function Values

Ponderosa Pine Tree Point Pattern

Interpret Fitted Model for Metropolis-Hastings Simulation.

Lengths of Line Segments

Plot a List of Things

Pairwise distances between line segments

Define Point Process Model for Metropolis-Hastings Simulation.

Kaplan-Meier and Reduced Sample Estimator using Histograms

Compute Quadrature Weights Based on Grid Counts

Fitted Conditional Intensity for Point Process Model

Plot a Pixel Image

Simulate Matern Model I

Japanese Pines Point Pattern

Saturated Pairwise Interaction Point Process Family

plot a Spatial Quadrature Scheme

Test whether Object is Multitype

Convert Line Segment Pattern to Another Unit of Length

plot a Fitted Point Process Model

Kernel Smoothing of Line Segment Pattern

Plot a List of Point Patterns

Create a Window

Summary of a List of Things

Apply Vector Translation To Line Segment Pattern

Q-Q Plot of Residuals from Fitted Point Process Model

Nearest neighbour

Rectangular grid of points

Simulate Thomas Process

Distance Map of Window

plot a Spatial Point Pattern

Plot a Function Array

Kernel Smoothed Intensity of Point Pattern

Window in Shape of Letter R

Simulate point patterns using the Metropolis-Hastings algorithm.

Sufficient Statistic of Point Process Model

Create a Line Segment Pattern

Diameter of a Window

Summarizing a Fitted Point Process Model

Define Point Process Model for Metropolis-Hastings Simulation.

Set Covariance of a Window

Generate N Uniform Random Points

Pair Correlation Function obtained from K Function

Lurking variable plot

dirichlet.weights

Compute Quadrature Weights Based on Dirichlet Tessellation

Extract Quadrature Scheme Used to Fit a Point Process Model

Nearest neighbour distances between line segments

Pair Correlation Function obtained from array of K functions

Distance Between Two Point Patterns

Crossing Points of Two Line Segment Patterns

Identify Points in a Point Pattern

Generate grid of parallel lines with random displacement

Beta Ganglion Cells in Cat Retina, Old Version

Print a Fitted Point Process Model

Test Whether An Object Is A Pixel Image

Class of Line Segment Patterns

Spokes pattern of dummy points

Extract Original Data from a Fitted Point Process Model

Generate a Default Pattern of Dummy Points

Interpolate a Pixel Image

Test Whether A Point Pattern is Marked

Pairwise distances

Aherne's hamster tumour data

spatstat-deprecated

Deprecated spatstat functions

California Redwoods Point Pattern (Ripley's Subset)

Evaluate Expression Involving Functions

Class of Fitted Point Process Models

Print Brief Details of a Point Pattern Dataset

Prediction from a Fitted Point Process Model

Generate Multitype Poisson Point Pattern

Hyper Data Frame

Randomly Shift a Point Pattern

Test Whether An Object Is A Window

Test Whether Marks Are Present

Test Whether An Object Is A Point Pattern

Determine Whether One Window is Contained In Another

Cartesian Coordinates for a Pixel Raster

Kolmogorov-Smirnov Test for Point Process Model

Mean Pixel Value in an Image

Fit a Log-Gaussian Cox Point Process by Minimum Contrast

Random Thinning

Fit Point Process Model to Data

Exponential Energy Marks

Spruces Point Pattern

Print Brief Details of an Image

Spatial smoothing of observations at irregular points

Interaction Distance of a Point Process

Ord Interaction Process Family

Set or Reset the Marks in a Point Pattern

Extract the Interaction from a Fitted Point Process Model

Perfect Simulation of the Strauss Process

Residuals for Fitted Point Process Model

pairdist.default

Pairwise distances

Perspective Plot of Pixel Image

Simulate Baddeley-Silverman Cell Process

Simulate from a Fitted Point Process Model

Distance for a Point Pattern Matching

Simulate Stratified Random Point Pattern

Divide Point Pattern into Sub-patterns

Mark Correlation Function

Fit the Matern Cluster Point Process by Minimum Contrast

Extract or Replace Subset of Point Pattern

Pairwise distances between two different line segment patterns

Generate N Random Multitype Points

rmhmodel.default

Build Point Process Model for Metropolis-Hastings Simulation.

Plot a Spatial Window

Create a Point Matching

Apply Vector Translation To Pixel Image

Apply Affine Transformation

Estimate the empty space function F

rescue.rectangle

Convert Window Back To Rectangle

Generate N Uniform Random Points in a Disc

Calculate four standard summary functions of a point pattern.

Apply Vector Translation To Point Pattern

subset.splitppp

Extract or Replace Sub-Patterns

Profile Maximum Pseudolikelihood

Apply Vector Translation To Window

Generate a Quadrature Scheme from a Point Pattern

Convert Window to Another Unit of Length

Nearest-Neighbour Correlation of Marked Point Pattern

Extract Subset of Function Values

Quadrat counting for a point pattern

Simulated Point Pattern

nearest.raster.point

Find Pixel Nearest to a Given Point

Simulate Neyman-Scott Process

multiplicity.ppp

Count Multiplicity of Duplicate Points

Plot a plotppm Object Created by plot.ppm

Orientation Angles of Line Segments

Pair Correlation Function of Point Pattern

California Redwoods Point Pattern (Entire Dataset)

New Zealand Trees Point Pattern

Simulate Point Process Models using the Metropolis-Hastings Algorithm.

Estimate window from points alone

pairwise.family

Pairwise Interaction Process Family

Generate N Random Points

Simulate Matern Model II

Print a Quadrature Scheme

Convert Point Pattern to Another Unit of Length

plot a Spatial Line Segment Pattern

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

Data and Code From JRSS Discussion Paper on Residuals

Random Re-Labelling of Point Pattern

spatstat.options

Internal Options in Spatstat Package

Print Progress Reports

Class of Quadrature Schemes

Pairwise distances

Reduced Sample Estimator using Histogram Data

selfcrossing.psp

Crossing Points in a Line Segment Pattern

Test Whether Points Are Inside A Window

Nearest Neighbour in Another Point Pattern

Set Control Parameters for Metropolis-Hastings Algorithm.

Apply Vector Translation

Simulate Matern Cluster Process

Extract Subset of Function Array

Rotate a Line Segment Pattern

Generate Poisson Random Line Process

Point Patterns of New Brunswick Forest Fires

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

Simulate Simple Sequential Inhibition

Summary of a Point Pattern Dataset

Summary of a Line Segment Pattern Dataset

Reset Values in Subset of Image

Generate Poisson Point Pattern

Sample Quantiles of Pixel Image

Determine Initial State for Metropolis-Hastings Simulation.

Summarizing a Pixel Image

Summary of a Spatial Window

Randomly Shift a Line Segment Pattern

Rotate a Window

Superimpose Several Point Patterns

Extract or Replace Subset of a List of Things

Rotate a Point Pattern

Extract Subset of Image

Extract Subset of Line Segment Pattern

Swedish Pines Point Pattern

Remove Marks from a Marked Point Pattern

Vertices of a Window

Extract Unique Points from a Spatial Point Pattern

Cut margins from rectangle

Name for Unit of Length

Summarizing a Quadrature Scheme

summary.splitppp

Summary of a Split Point Pattern

Update a Fitted Point Process Model

Variance-Covariance Matrix for a Fitted Point Process Model

Union of Data and Dummy Points

Apply Affine Transformation To Point Pattern

Estimate the I-function

Fit the Thomas Point Process by Minimum Contrast

Coefficients of Fitted Point Process Model

density.splitppp

Kernel Smoothed Intensity of Split Point Pattern

Simulation envelopes of summary function

Test Whether An Object Is A Fitted Point Process Model

Method of Minimum Contrast

Pairwise distances

plot.hyperframe

Plot Entries in a Hyperframe

spatstat-internal

Internal spatstat functions

Longleaf Pines Point Pattern

Summarise Marks in Every Neighbourhood in a Point Pattern

Neighbourhood density function

Nearest neighbour distances

Print Brief Details of a Spatial Window

Kaplan-Meier Estimator using Histogram Data

rshift.splitppp

Randomly Shift a List of Point Patterns

Read Point Pattern From Data File

Create a Point Pattern

Print Brief Details of a Line Segment Pattern Dataset

pppmatching.object

Class of Point Matchings