Learn R Programming

⚠️There's a newer version (3.3-1) of this package.Take me there.

spatstat (version 1.16-2)

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).

Copy Link

Version

Install

install.packages('spatstat')

Monthly Downloads

18,534

Version

1.16-2

License

GPL (>= 2)

Maintainer

Adrian Baddeley

Last Published

August 23rd, 2009

Functions in spatstat (1.16-2)

Pairwise distances between two different point patterns

Diagnostic Plots for Fitted Point Process Model

Create a Pixel Image Object

Print a Quadrature Scheme

Convert Window to Pixel Image

Circular Window

Simulate Matern Model II

Kernel Smoothed Intensity of Point Pattern

Berman-Huntington points and lines data

Log Likelihood for Poisson Point Process Model

Test Whether An Object Is A Window

Intersection or Union of Two Windows

Mark Connection Function

Pairwise distances

Pair Correlation Function obtained from array of K functions

Apply Vector Translation To Window

pairdist.default

Pairwise distances

Distance for a Point Pattern Matching

Summary of a List of Things

Areas of Morphological Dilations

Lansing Woods Point Pattern

Simulate point patterns using the Metropolis-Hastings algorithm.

Nearest neighbour distances between line segments

Find Line Segment Nearest to Each Point

Determine Whether One Window is Contained In Another

Convert Window to Another Unit of Length

Nearest Neighbours Between Two Patterns

Simulate Point Process Models using the Metropolis-Hastings Algorithm.

Sufficient Statistic of Point Process Model

Kaplan-Meier Estimator using Histogram Data

Plot a Pixel Image

Morphological Opening

Class of Point Patterns

Test Whether A Point Pattern is Marked

plot a Spatial Quadrature Scheme

Create a Tessellation

Mark Correlation Function

Convert Pixel Image to Another Unit of Length

Concatenate x,y Coordinate Vectors

dirichlet.weights

Compute Quadrature Weights Based on Dirichlet Tessellation

plot a Spatial Line Segment Pattern

Set Control Parameters for Metropolis-Hastings Algorithm.

Create a Point Pattern

Class of Images

Pair Correlation Function of Point Pattern

Data and Code From JRSS Discussion Paper on Residuals

nearest.raster.point

Find Pixel Nearest to a Given Point

Multitype pair correlation function

quadratresample

Resample a Point Pattern by Resampling Quadrats

Convert Line Segment Pattern to Another Unit of Length

Test Whether An Object Is A Fitted Point Process Model

is.multitype.ppm

Test Whether A Point Process Model is Multitype

Mosaic Random Field

Simulate Simple Sequential Inhibition

Crossing Points of Two Line Segment Patterns

Tabulate Marks in Neighbourhood of Every Point in a Point Pattern

project2segment

Move Point To Nearest Line

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

Kaplan-Meier and Reduced Sample Estimator using Histograms

Fit the Matern Cluster Point Process by Minimum Contrast

Apply Vector Translation To Line Segment Pattern

Test Whether a Window is Convex

Nearest neighbour distances

Plot a Spatial Kolmogorov-Smirnov Test

Mosaic Random Set

Convex Hull of Points

Point and Click Interface for Exploratory Analysis of Point Pattern

Rotate a Point Pattern

Mark Correlation Integral

compatible.fasp

Test Whether Two Function Arrays Are Compatible

Vertices of a Window

Fit cluster point process model

Delaunay Triangulation of Point Pattern

Intersect Infinite Straight Lines with a Window

Classify Points in a Point Pattern

Test Whether Two Function Objects Are Compatible

Pair Correlation Function obtained from K Function

Interaction Distance of a Point Process

Test Whether An Object Is Empty

California Redwoods Point Pattern (Entire Dataset)

Create a Window

Kernel Smoothing of Line Segment Pattern

Superimpose Several Line Segment Patterns

Plot a List of Point Patterns

Prediction from a Fitted Cluster Point Process Model

Test whether Object is Multitype

Plot a fitted cluster point process

Test Whether An Object Is A Pixel Image

Fit a Log-Gaussian Cox Point Process by Minimum Contrast

Plot a Function Array

Colour Lookup Tables

Plot Function Values

complement.owin

Take Complement of a Window

Determine Initial State for Metropolis-Hastings Simulation.

Simulate Gauss-Poisson Process

plot a Spatial Point Pattern

Convert Point Pattern to Another Unit of Length

Class of Line Segment Patterns

Test Whether Marks Are Present

Simulation envelopes of summary function

Morishita Index Plot

Generate a Quadrature Scheme from a Point Pattern

Random Re-Labelling of Point Pattern

Kolmogorov-Smirnov Test for Point Process Model

Japanese Pines Point Pattern

Generate Multitype Poisson Point Pattern

Morphological Closing

Generate N Uniform Random Points

Random Thinning

Swedish Pines Point Pattern

plot.bermantest

Plot Result of Berman Test

Class of Fitted Point Process Models

Test Whether Two Pixel Images Are Compatible

Test Whether Points Are Inside A Window

Convert Pixel Image from Numeric to Factor

Pair Correlation Function

Print Brief Details of a Spatial Window

California Redwoods Point Pattern (Ripley's Subset)

Test Whether An Object Is A Point Pattern

Sample Quantiles of Pixel Image

Print Progress Reports

Create a Point Matching

Convert dataset to another unit of length

Artificial Data Point Pattern

Level Set of a Pixel Image

Simulate a Fitted Cluster Point Process Model

Lengths of Line Segments

model.matrix.ppm

Extract Design Matrix from Point Process Model

Convert Spatial Object to Pixel Image

Intersection of Two Tessellations

inforder.family

Infinite Order Interaction Family

Method of Minimum Contrast

Point and Click Interface for Displaying a Point Pattern

Convert Point Pattern to Pixel Image

Random Perturbation of a Point Pattern

Infinite Straight Lines

Plot a tessellation

Rotate a Window

Pairwise distances between line segments

Simulate from a Fitted Point Process Model

Approximate a Polygon by a Simpler Polygon

Plot a plotppm Object Created by plot.ppm

Randomly Shift a Point Pattern

Nearest-Neighbour Correlation Indices of Marked Point Pattern

Point Patterns of New Brunswick Forest Fires

rshift.splitppp

Randomly Shift a List of Point Patterns

Perspective Plot of Pixel Image

Generate grid of parallel lines with random displacement

Morphological Dilation

Summarise Marks in Every Neighbourhood in a Point Pattern

Estimate window from points alone

Profile Maximum Pseudolikelihood

Divide Image Into Sub-images

pppmatching.object

Class of Point Matchings

Rotate a Line Segment Pattern

Extract Quadrature Scheme Used to Fit a Point Process Model

Simulate Matern Model I

Area of Part of Disc

Read Point Pattern From Data File

Generate Poisson Point Pattern on Line Segments

Quadrature Scheme Based on Pixel Grid

rmhmodel.default

Build Point Process Model for Metropolis-Hastings Simulation.

Fit Point Process Model to Data

Print Brief Details of an Image

New Zealand Trees Point Pattern

Plot a List of Things

Set Covariance of a Window

spatstat-internal

Internal spatstat functions

Lurking variable plot

Apply Vector Translation

Interpolate a Pixel Image

Ord Interaction Process Family

plot a Fitted Point Process Model

summary.splitppp

Summary of a Split Point Pattern

Spruces Point Pattern

Create a Line Segment Pattern

Simulate Neyman-Scott Process

Generate N Random Points

Simulate Stratified Random Point Pattern

Simulate Matern Cluster Process

Divide Point Pattern into Sub-patterns

Generate Poisson Point Pattern

Safely Convert Point Pattern Window to Binary Mask

Randomly Shift a Line Segment Pattern

Define Point Process Model for Metropolis-Hastings Simulation.

Perimeter Length of Window

Q-Q Plot of Residuals from Fitted Point Process Model

Test Whether A Point Process Model is Marked

Summarizing a Quadrature Scheme

Extract Unique Points from a Spatial Point Pattern

Find Largest Circle Inside Window

Evaluate an Expression in a Function Table

Distance Between Two Point Patterns

Pairwise distances

Ponderosa Pine Tree Point Pattern

Union of Data and Dummy Points

quadrat.test.splitppp

Chi-Squared Test of CSR for Split Point Pattern

Extract List of Tiles in a Tessellation

Update a Fitted Cluster Point Process Model

Spokes pattern of dummy points

Summary of a Spatial Window

Superimpose Several Point Patterns

Galaxies in the Shapley Supercluster

Plot a Spatial Window

Compute Images of Constructed Covariates

Summary of a Line Segment Pattern Dataset

Cartesian Coordinates for a Pixel Raster

Midpoints of Line Segment Pattern

Reduced Sample Estimator using Histogram Data

Generate N Random Multitype Points

Generate N Uniform Random Points in a Disc

Perfect Simulation of the Strauss Process

Neighbourhood density function

Murchison gold deposits

Variance-Covariance Matrix for a Fitted Point Process Model

Simulated Point Pattern

Apply Vector Translation To Point Pattern

Nearest neighbour

Urkiola Woods Point Pattern

runifpointOnLines

Generate N Uniform Random Points On Line Segments

Set or Reset the Marks in a Point Pattern

Apply Affine Transformation To Line Segment Pattern

Simulate Thomas Process

Apply Gaussian Blur to a Pixel Image

Interpret Fitted Model for Metropolis-Hastings Simulation.

rescue.rectangle

Convert Window Back To Rectangle

Apply Vector Translation To Pixel Image

Generate Poisson Random Line Process

Multitype L-function (cross-type)

Saturated Pairwise Interaction Point Process Family

spatstat.options

Internal Options in Spatstat Package

Update a Fitted Point Process Model

Print a Fitted Point Process Model

Extract.splitppp

Extract or Replace Sub-Patterns

Inhomogeneous Cross K Function

The Strauss Point Process Model

Name for Unit of Length

Simulate a Fitted Gibbs Point Process Model

Print Brief Details of a Line Segment Pattern Dataset

Apply Function to Every Neighbourhood in a Point Pattern

spatstat-package

The Spatstat Package

Summarizing a Pixel Image

Tropical rain forest trees

Apply Affine Transformation To Point Pattern

Poisson Line Tessellation

selfcrossing.psp

Crossing Points in a Line Segment Pattern

Pine saplings in Finland.

crossdist.default

Pairwise distances between two different sets of points

Convert to Pixel Image

Spatial smoothing of observations at irregular points

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

Plot a Colour Map

Generic Pairwise Interaction model

Area of a Window

Window in Shape of Letter R

MultiStraussHard

The Multitype/Hard Core Strauss Point Process Model

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

Reset Values in Subset of Image

Saturated Pairwise Interaction model

as.data.frame.ppp

Coerce Point Pattern to a Data Frame

The Strauss / Hard Core Point Process Model

Pairwise distances

Evaluate Expression Involving Functions

multiplicity.ppp

Count Multiplicity of Duplicate Points

Multitype K Function (i-to-any)

Define Point Process Model for Metropolis-Hastings Simulation.

Compute Integral of Function Against Cumulative Distribution

Compute Quadrature Weights Based on Grid Counts

Calculate Summary Statistic for All Types in a Multitype Point Pattern

Diagnostics for random marking

Reduced Second Moment Measure

The Lennard-Jones Potential

The Multitype Strauss Point Process Model

Divide Region into Quadrats

Mean, Median and Range of Pixel Values in an Image

Connected components of an image or window

Apply Affine Transformation To Window

Extract the Interaction from a Fitted Point Process Model

Evaluate Expression Involving Function Arrays

Harkness-Isham ants' nests data

Beta Ganglion Cells in Cat Retina, Old Version

as.data.frame.psp

Coerce Line Segment Pattern to a Data Frame

Residuals for Fitted Point Process Model

Humberside Data on Childhood Leukaemia and Lymphoma

is.multitype.ppp

Test Whether A Point Pattern is Multitype

Convert Pixel Image to Matrix

Convert Data To Class owin

Convert Data To Class psp

Simulate Baddeley-Silverman Cell Process

Estimate the I-function

The Area Interaction Point Process Model

Hyper Data Frame

Piecewise Constant Saturated Pairwise Interaction Point Process Model

Extract Dummy Points Used to Fit a Point Process Model

Extract Subset of Line Segment Pattern

Subdivide a Window or Tessellation using a Set of Lines

Orientation Angles of Line Segments

Calculate four standard summary functions of a point pattern.

Marked J Function

Difference of Disc Areas

Chorley-Ribble Cancer Data

Inhomogeneous K-function

Marked K-Function

Distance Map of Point Pattern

adaptive.density

Intensity Estimate of Point Pattern Using Tessellation

Marked Nearest Neighbour Distance Function

Berman's Tests for Point Process Model

Bounding Box of a Window or Point Pattern

Extract Subset of Image

Distance to Boundary of Window

Nearest Neighbour Distance Function G

Diggle-Gratton model

Hutchings' Bramble Canes data

Extract or Replace Subset of a List of Things

Corners of a rectangle

Multitype J Function (i-to-any)

Fitted Conditional Intensity for Point Process Model

Evaluate an Expression in Each Row of a Hyperframe

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

Inhomogeneous Multitype L Dot Function

Distance to Boundary of Window

Contour plot of pixel image

Rectangular grid of points

Apply a Function to a Point Pattern Broken Down by Factor

Extract Subset of Function Array

Summary of a Point Pattern Dataset

Identify Points in a Point Pattern

Generate a Default Pattern of Dummy Points

Combine Two Line Segment Patterns

Extract or Replace Subset of Point Pattern

Data Frames of Function Values

Estimate the J-function

The Soft Core Point Process Model

Exponential Energy Marks

Biological Cells Point Pattern

Pairwise distances between two different line segment patterns

Distance Map of Line Segment Pattern

Class of Quadrature Schemes

Determine Duplicated Points in a Spatial Point Pattern

Convert Polygonal Region into Different Format

Fry Plot of Point Pattern

Subset of Quadrature Scheme

Morphological Erosion

Extract Original Data from a Fitted Point Process Model

Spherical Contact Distribution Function

Endpoints of Line Segment Pattern

spatstat-deprecated

Deprecated spatstat functions

Convert a Window to a Polygonal Window

Beta Ganglion Cells in Cat Retina

K-function using FFT

Multitype K Function (Cross-type)

Diggle's Heather Data

Diameter of a Window

Function Arrays for Spatial Patterns

Dirichlet Tessellation of Point Pattern

Clark and Evans Aggregation Index

Generic Ord Interaction model

ANOVA for Fitted Point Process Models

Hughes' Amacrine Cell Data

Apply Function to Image Broken Down by Factor

Areas of Morphological Erosions

Histogram of Pixel Values in an Image

Extract Subset of Function Values

Difference of Disc Areas

Evaluate Expression Involving Pixel Images

The Piecewise Constant Pairwise Interaction Point Process Model

Ord's Interaction model

Poisson Point Process Model

Inhomogeneous Multitype K Dot Function

Beadlet Anemones Data

Estimate the empty space function F

density.splitppp

Kernel Smoothed Intensity of Split Point Pattern

Multitype J Function (i-to-j)

Convert Data To Class ppp

Simulate systematic random point pattern

Apply Affine Transformation

Multitype L-function (i-to-any)

Coefficients of Fitted Point Process Model

Basis for Harmonic Functions

Expand Window By Factor

Weighted Empirical Cumulative Distribution Function

Extract or Replace Subset of Tessellation

Hybrid Geyer Point Process Model

Aherne's hamster tumour data

Interactively Add Points

pairwise.family

Pairwise Interaction Process Family

plot.hyperframe

Plot Entries in a Hyperframe

Print Brief Details of a Point Pattern Dataset

Place Points Evenly Along Specified Lines

Prediction from a Fitted Point Process Model

Longleaf Pines Point Pattern

Quadrat counting for a point pattern

Cut margins from rectangle

Fit the Thomas Point Process by Minimum Contrast

Geyer's Saturation Point Process Model

bounding.box.xy

Convex Hull of Points

Convert Data To Tessellation

Compute Fitted Effect of a Spatial Covariate in a Point Process Model

Inhomogeneous Cross Type L Function

Centroid of a window

Interactively Define a Polygon

Distance Map of Window

Pixel Image Approximation of a Window

Summarizing a Fitted Point Process Model