Learn R Programming

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

spatstat (version 1.17-1)

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).

Copy Link

Version

Install

install.packages('spatstat')

Monthly Downloads

18,534

Version

1.17-1

License

GPL (>= 2)

Maintainer

Adrian Baddeley

Last Published

November 6th, 2009

Functions in spatstat (1.17-1)

MultiStraussHard

The Multitype/Hard Core Strauss Point Process Model

Diggle-Gratton model

Inhomogeneous Cross Type L Function

Morphological Closing

Extract Subset of Image

Geyer's Saturation Point Process Model

Inhomogeneous K-function

Kernel Smoothing of Line Segment Pattern

Combine Two Line Segment Patterns

Berman's Tests for Point Process Model

Connected components of an image or window

Apply Function to Every Neighbourhood in a Point Pattern

Spherical Contact Distribution Function

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

Subset of Quadrature Scheme

Convert Data to Three-Dimensional Box

Extract or Replace Subset of Tessellation

Compute Quadrature Weights Based on Grid Counts

Hyper Data Frame

density.splitppp

Kernel Smoothed Intensity of Split Point Pattern

Nearest Neighbour Distance Function G

Bronze gradient filter data

Extract Coordinates of a Spatial or Spatiotemporal Point Pattern

Empty Space Function of a Three-Dimensional Point Pattern

Hybrid Geyer Point Process Model

Calculate four standard summary functions of a point pattern.

Reduced Second Moment Measure

Diagnostics for random marking

pppmatching.object

Class of Point Matchings

Estimate the J-function

Fit the Matern Cluster Point Process by Minimum Contrast

Diagnostic Plots for Fitted Point Process Model

Biological Cells Point Pattern

Poisson Point Process Model

Chorley-Ribble Cancer Data

Expand Window By Factor

Geometrical Calculations for Three-Dimensional Box

Interactively Define a Polygon

Generate a Default Pattern of Dummy Points

Reset Values in Subset of Image

Difference of Disc Areas

Function Arrays for Spatial Patterns

Diggle's Heather Data

Saturated Pairwise Interaction Point Process Family

New Zealand Trees Point Pattern

Nearest neighbour distances between line segments

Extract Subset of Function Values

Morphological Dilation

Multitype J Function (i-to-j)

Generic Pairwise Interaction model

Histogram of Pixel Values in an Image

Prediction from a Fitted Cluster Point Process Model

spatstat-internal

Internal spatstat functions

Pair Correlation Function obtained from K Function

Saturated Pairwise Interaction model

Simulate Stratified Random Point Pattern

Inhomogeneous Multitype L Dot Function

Test Whether Two Function Objects Are Compatible

complement.owin

Take Complement of a Window

Apply Affine Transformation

Generate N Uniform Random Points in a Disc

Convert a Window to a Polygonal Window

Intersect Infinite Straight Lines with a Window

Diameter of a Window

Area of a Window

Extract Original Data from a Fitted Point Process Model

bounding.box.xy

Convex Hull of Points

Random Thinning

Tropical rain forest trees

The Strauss Point Process Model

adaptive.density

Intensity Estimate of Point Pattern Using Tessellation

Test Whether A Point Pattern is Marked

Three-Dimensional Box

Calculate Summary Statistic for All Types in a Multitype Point Pattern

Pair Correlation Function

Estimate the empty space function F

Inhomogeneous Multitype K Dot Function

The Strauss / Hard Core Point Process Model

Humberside Data on Childhood Leukaemia and Lymphoma

Test Whether An Object Is A Pixel Image

as.data.frame.psp

Coerce Line Segment Pattern to a Data Frame

spatstat.options

Internal Options in Spatstat Package

Convert Pixel Image to Matrix

Distance Map of Line Segment Pattern

Apply Function to Image Broken Down by Factor

Multitype L-function (i-to-any)

Data and Code From JRSS Discussion Paper on Residuals

crossdist.default

Pairwise distances between two different sets of points

Tabulate Marks in Neighbourhood of Every Point in a Point Pattern

Ord's Interaction model

K-function using FFT

Inhomogeneous Cross K Function

spatstat-deprecated

Deprecated spatstat functions

Convert Window to Pixel Image

Multidimensional Space-Time Point Pattern

Crossing Points of Two Line Segment Patterns

Random Re-Labelling of Point Pattern

Marked J Function

Set or Reset the Marks in a Point Pattern

Find Line Segment Nearest to Each Point

Contour plot of pixel image

Kolmogorov-Smirnov Test for Point Process Model

Kernel Smoothed Intensity of Point Pattern

Convert Data To Class ppp

Summary of a List of Things

inforder.family

Infinite Order Interaction Family

Lansing Woods Point Pattern

Pixel Image Approximation of a Window

Beadlet Anemones Data

Simulate from a Fitted Point Process Model

Delaunay Triangulation of Point Pattern

Pine saplings in Finland.

Intersection, Union or Set Subtraction of Two Windows

Test Whether An Object Is A Point Pattern

selfcrossing.psp

Crossing Points in a Line Segment Pattern

as.hyperframe.ppx

Extract coordinates and marks of multidimensional point pattern

Extract or Replace Subset of a List of Things

Generic Ord Interaction model

Endpoints of Line Segment Pattern

Extract or Replace Subset of Point Pattern

Pairwise distances

Dirichlet Tessellation of Point Pattern

Superimpose Several Line Segment Patterns

Orientation Angles of Line Segments

Beta Ganglion Cells in Cat Retina

Three Dimensional Point Pattern

Rectangular grid of points

California Redwoods Point Pattern (Entire Dataset)

Test Whether Marks Are Present

Apply Vector Translation

Interaction Distance of a Point Process

Convert to Pixel Image

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

pairwise.family

Pairwise Interaction Process Family

Convert Data To Class owin

Convert Pixel Image from Numeric to Factor

Convert Data To Tessellation

Circular Window

Morishita Index Plot

The Soft Core Point Process Model

Concatenate x,y Coordinate Vectors

Kaplan-Meier Estimator using Histogram Data

as.data.frame.ppp

Coerce Point Pattern to a Data Frame

Distance Map of Point Pattern

dirichlet.weights

Compute Quadrature Weights Based on Dirichlet Tessellation

Extract Subset of Line Segment Pattern

Areas of Morphological Erosions

Print Brief Details of a Point Pattern Dataset

Interpolate a Pixel Image

Extract Dummy Points Used to Fit a Point Process Model

Fit a Log-Gaussian Cox Point Process by Minimum Contrast

Extract.splitppp

Extract or Replace Sub-Patterns

Nearest neighbour distances

Convex Hull of Points

Classify Points in a Point Pattern

K-function of a Three-Dimensional Point Pattern

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

Print Progress Reports

Evaluate Expression Involving Functions

Berman-Huntington points and lines data

Extract the Interaction from a Fitted Point Process Model

Apply Affine Transformation To Line Segment Pattern

ANOVA for Fitted Point Process Models

Vertices of a Window

Simulate Gauss-Poisson Process

rescue.rectangle

Convert Window Back To Rectangle

Generate N Random Multitype Points

Convert Data to Hyperframe

Colour Lookup Tables

multiplicity.ppp

Count Multiplicity of Duplicate Points

model.matrix.ppm

Extract Design Matrix from Point Process Model

Marked K-Function

Apply Vector Translation To Window

Subdivide a Window or Tessellation using a Set of Lines

Fitted Conditional Intensity for Point Process Model

Multitype K Function (Cross-type)

Border Region of a Window

Midpoints of Line Segment Pattern

Morphological Opening

Hutchings' Bramble Canes data

Quadrat counting for a point pattern

Simulate Matern Cluster Process

Plot a Spatial Window

Murchison gold deposits

Multitype pair correlation function

Define Point Process Model for Metropolis-Hastings Simulation.

Centroid of a window

Basis for Harmonic Functions

quadratresample

Resample a Point Pattern by Resampling Quadrats

rmhmodel.default

Build Point Process Model for Metropolis-Hastings Simulation.

Test Whether Two Pixel Images Are Compatible

Fit cluster point process model

Pair Correlation Function of Point Pattern

Area of Part of Disc

Intersection of Two Tessellations

Create a Line Segment Pattern

Methods for Three-Dimensional Box

spatstat-package

The Spatstat Package

Set Control Parameters for Metropolis-Hastings Algorithm.

is.multitype.ppp

Test Whether A Point Pattern is Multitype

Plot Function Values

summary.splitppp

Summary of a Split Point Pattern

Aherne's hamster tumour data

with.hyperframe

Evaluate an Expression in Each Row of a Hyperframe

Interpret Fitted Model for Metropolis-Hastings Simulation.

Extract List of Tiles in a Tessellation

Lurking variable plot

Lengths of Line Segments

Distance to Boundary of Window

Evaluate Expression Involving Pixel Images

Estimate the I-function

Nearest neighbour

Pairwise distances between two different point patterns

plot a Spatial Quadrature Scheme

Mark Correlation Integral

Point and Click Interface for Displaying a Point Pattern

Convert Point Pattern to Another Unit of Length

pairdist.default

Pairwise distances

The Lennard-Jones Potential

Safely Convert Point Pattern Window to Binary Mask

Print Brief Details of an Image

The Area Interaction Point Process Model

plot a Fitted Point Process Model

Convert Polygonal Region into Different Format

Distance Map as a Function

Multitype L-function (cross-type)

Union of Data and Dummy Points

Mark Correlation Function

Convert Data To Class psp

Create a Point Matching

Generate N Random Points

Coefficients of Fitted Point Process Model

Clark and Evans Aggregation Index

Distance for a Point Pattern Matching

The Multitype Strauss Point Process Model

Compute Images of Constructed Covariates

Generate Multitype Poisson Point Pattern

Test Whether a Window is Convex

Distance Between Two Point Patterns

Piecewise Constant Saturated Pairwise Interaction Point Process Model

Test whether Object is Multitype

Determine Whether One Window is Contained In Another

Simulate Thomas Process

Convert Point Pattern to Pixel Image

The Piecewise Constant Pairwise Interaction Point Process Model

Print Brief Details of a Line Segment Pattern Dataset

Weighted Empirical Cumulative Distribution Function

Profile Maximum Pseudolikelihood

Divide Image Into Sub-images

Fit Point Process Model to Data

Bounding Box of a Window or Point Pattern

California Redwoods Point Pattern (Ripley's Subset)

Hughes' Amacrine Cell Data

Identify Points in a Point Pattern

Mosaic Random Set

Cartesian Coordinates for a Pixel Raster

Simulate a Fitted Gibbs Point Process Model

Test Whether An Object Is Empty

Infinite Straight Lines

Plot a List of Point Patterns

Print Brief Details of a Spatial Window

nearest.raster.point

Find Pixel Nearest to a Given Point

Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern

runifpointOnLines

Generate N Uniform Random Points On Line Segments

Multitype J Function (i-to-any)

Plot a Colour Map

Simulate Matern Model II

Summarizing a Quadrature Scheme

Pairwise distances between line segments

Simulate systematic random point pattern

Print a Quadrature Scheme

plot a Spatial Line Segment Pattern

Determine Duplicated Points in a Spatial Point Pattern

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

Test Whether Points Are Inside A Window

Generate N Uniform Random Points

Plot a Pixel Image

Corners of a rectangle

Exponential Energy Marks

plot.bermantest

Plot Result of Berman Test

Print a Fitted Point Process Model

Kaplan-Meier and Reduced Sample Estimator using Histograms

Rotate a Line Segment Pattern

project2segment

Move Point To Nearest Line

rshift.splitppp

Randomly Shift a List of Point Patterns

Extract Subset of Function Array

Areas of Morphological Dilations

Convert Pixel Image to Another Unit of Length

Superimpose Several Point Patterns

Distance Map of Window

Summarizing a Fitted Point Process Model

quadrat.test.splitppp

Chi-Squared Test of CSR for Split Point Pattern

Set Covariance of a Window

Convert Spatial Object to Pixel Image

Convert Window to Another Unit of Length

Class of Quadrature Schemes

Variance-Covariance Matrix for a Fitted Point Process Model

Cut margins from rectangle

Apply Affine Transformation To Window

Randomly Shift a Point Pattern

Urkiola Woods Point Pattern

Update a Fitted Cluster Point Process Model

Randomly Shift a Line Segment Pattern

Simulated Point Pattern

Level Set of a Pixel Image

Plot a Function Array

Point Patterns of New Brunswick Forest Fires

Poisson Line Tessellation

Plot a tessellation

Pairwise distances between two different line segment patterns

Random Perturbation of a Point Pattern

Ord Interaction Process Family

Convert dataset to another unit of length

Fry Plot of Point Pattern

is.multitype.ppm

Test Whether A Point Process Model is Multitype

Name for Unit of Length

Japanese Pines Point Pattern

Class of Images

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

Rotate a Point Pattern

Pair Correlation Function obtained from array of K functions

Simulate point patterns using the Metropolis-Hastings algorithm.

compatible.fasp

Test Whether Two Function Arrays Are Compatible

Galaxies in the Shapley Supercluster

Plot a Spatial Kolmogorov-Smirnov Test

Generate Poisson Random Line Process

Plot a three-dimensional point pattern

Methods for Multidimensional Space-Time Point Patterns

Create a Tessellation

Apply Vector Translation To Pixel Image

Update a Fitted Point Process Model

Evaluate an Expression in a Function Table

Read Point Pattern From Data File

plot a Spatial Point Pattern

Simulate Baddeley-Silverman Cell Process

Nearest-Neighbour Correlation Indices of Marked Point Pattern

Extract Unique Points from a Spatial Point Pattern

Generate a Quadrature Scheme from a Point Pattern

Log Likelihood for Poisson Point Process Model

Mark Connection Function

Test Whether An Object Is A Fitted Point Process Model

Summarizing a Pixel Image

Reduced Sample Estimator using Histogram Data

Marked Nearest Neighbour Distance Function

Simulate a Fitted Cluster Point Process Model

Generate grid of parallel lines with random displacement

Mosaic Random Field

Residuals for Fitted Point Process Model

Generate Poisson Point Pattern

Create a Window

Compute Integral of Function Against Cumulative Distribution

Window in Shape of Letter R

Prediction from a Fitted Point Process Model

Test Whether An Object Is A Window

Quadrature Scheme Based on Pixel Grid

Extract Quadrature Scheme Used to Fit a Point Process Model

Perfect Simulation of the Strauss Process

Create a Point Pattern

Simulate Point Process Models using the Metropolis-Hastings Algorithm.

Convert Line Segment Pattern to Another Unit of Length

Class of Line Segment Patterns

Apply Vector Translation To Point Pattern

Neighbourhood density function

Find Largest Circle Inside Window

Sufficient Statistic of Point Process Model

Spruces Point Pattern

Nearest Neighbours Between Two Patterns

Data Frames of Function Values

Summary of a Spatial Window

Class of Fitted Point Process Models

Apply Vector Translation To Line Segment Pattern

Distance to Boundary of Window

Divide Point Pattern into Sub-patterns

Methods for three-dimensional point patterns

Summary of a Line Segment Pattern Dataset

Fit the Thomas Point Process by Minimum Contrast

Perspective Plot of Pixel Image

Create a Pixel Image Object

Generate Poisson Point Pattern on Line Segments

Plot a List of Things

Summary of a Point Pattern Dataset

Place Points Evenly Along Specified Lines

Determine Initial State for Metropolis-Hastings Simulation.

plot.hyperframe

Plot Entries in a Hyperframe

Simulate Simple Sequential Inhibition

Swedish Pines Point Pattern

Longleaf Pines Point Pattern

Class of Point Patterns

Beta Ganglion Cells in Cat Retina, Old Version

Plot a fitted cluster point process

Q-Q Plot of Residuals from Fitted Point Process Model

Pairwise distances

Method of Minimum Contrast

Multitype K Function (i-to-any)

Perimeter Length of Window

Test Whether A Point Process Model is Marked

Difference of Disc Areas

Morphological Erosion

Mean, Median and Range of Pixel Values in an Image

Simulation envelopes of summary function

Apply Affine Transformation To Point Pattern

Distance to Boundary of Window

Harkness-Isham ants' nests data

Apply a Function to a Point Pattern Broken Down by Factor

Interactively Add Points

Artificial Data Point Pattern

Point and Click Interface for Exploratory Analysis of Point Pattern

Apply Gaussian Blur to a Pixel Image

Define Point Process Model for Metropolis-Hastings Simulation.

Ponderosa Pine Tree Point Pattern

Estimate window from points alone

Spatial smoothing of observations at irregular points

Approximate a Polygon by a Simpler Polygon

Divide Region into Quadrats

Summarise Marks in Every Neighbourhood in a Point Pattern

Sample Quantiles of Pixel Image

Evaluate Expression Involving Function Arrays

Pairwise distances

Simulate Neyman-Scott Process

Rotate a Window

Simulate Matern Model I

Spokes pattern of dummy points

Plot a plotppm Object Created by plot.ppm