spatstat

swMATH4429CRANspatstatMaRDI QIDQ16605FDOQ16605

Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests

Adrian Baddeley, Rolf Turner, Ege Rubak

Last update: 30 October 2023

Copyright license: GNU General Public License, version 3.0, GNU General Public License, version 2.0

Software version identifier: 3.0-3, 3.0-5, 3.0-6, 1.0-1, 1.1-3, 1.2-1, 1.3-1, 1.3-2, 1.3-3, 1.3-4, 1.4-3, 1.4-4, 1.4-5, 1.4-6, 1.5-1, 1.5-3, 1.5-4, 1.5-5, 1.5-6, 1.5-7, 1.5-8, 1.5-9, 1.5-10, 1.6-1, 1.6-2, 1.6-3, 1.6-4, 1.6-5, 1.6-6, 1.6-7, 1.6-8, 1.6-9, 1.6-11, 1.6-12, 1.7-11, 1.7-12, 1.7-13, 1.8-1, 1.8-2, 1.8-3, 1.8-4, 1.8-5, 1.8-6, 1.8-7, 1.8-8, 1.8-9, 1.9-0, 1.9-1, 1.9-2, 1.9-3, 1.9-4, 1.9-5, 1.9-6, 1.10-1, 1.10-2, 1.10-3, 1.11-0, 1.11-1, 1.11-2, 1.11-3, 1.11-4, 1.11-5, 1.11-6, 1.11-7, 1.11-8, 1.12-0, 1.12-1, 1.12-2, 1.12-3, 1.12-4, 1.12-5, 1.12-6, 1.12-7, 1.12-8, 1.12-9, 1.13-0, 1.13-1, 1.13-2, 1.13-3, 1.13-4, 1.14-0, 1.14-1, 1.14-2, 1.14-3, 1.14-4, 1.14-5, 1.14-6, 1.14-7, 1.14-8, 1.14-9, 1.14-10, 1.15-0, 1.15-1, 1.15-2, 1.15-3, 1.15-4, 1.16-0, 1.16-1, 1.16-2, 1.16-3, 1.17-0, 1.17-1, 1.17-2, 1.17-4, 1.17-5, 1.17-6, 1.18-0, 1.18-1, 1.18-2, 1.18-3, 1.18-4, 1.19-0, 1.19-1, 1.19-2, 1.19-3, 1.20-1, 1.20-2, 1.20-3, 1.20-5, 1.21-0, 1.21-1, 1.21-2, 1.21-3, 1.21-4, 1.21-5.1, 1.21-5, 1.21-6, 1.22-0, 1.22-1, 1.22-2, 1.22-3, 1.23-0, 1.23-1, 1.23-2, 1.23-3, 1.23-4, 1.23-5, 1.23-6, 1.24-1, 1.24-2, 1.25-0, 1.25-1, 1.25-2, 1.25-3, 1.25-4, 1.25-5, 1.26-0, 1.26-1, 1.27-0, 1.28-0, 1.28-1, 1.28-2, 1.29-0, 1.30-0, 1.31-0, 1.31-1.1, 1.31-1, 1.31-2, 1.31-3, 1.32-0, 1.33-0, 1.34-0, 1.34-1, 1.35-0, 1.36-0, 1.37-0, 1.38-0, 1.38-1, 1.39-0, 1.39-1, 1.40-0, 1.41-1, 1.42-0, 1.42-1, 1.42-2, 1.43-0, 1.44-0, 1.44-1, 1.45-0, 1.45-2, 1.46-1, 1.47-0, 1.48-0, 1.49-0, 1.50-0, 1.51-0, 1.52-1, 1.53-2, 1.54-0, 1.55-0, 1.55-1, 1.56-0, 1.56-1, 1.57-1, 1.58-2, 1.59-0, 1.60-1, 1.61-0, 1.62-2, 1.63-0, 1.63-2, 1.63-3, 1.64-1, 2.0-1, 2.1-0, 2.2-0, 2.3-0, 2.3-3, 2.3-4, 3.0-2, 3.0-7

Official website: https://cran.r-project.org/package=spatstat

Source code repository: https://github.com/cran/spatstat

Description

Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images. Contains over 3000 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, pixel images, tessellations, and linear networks. Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.

Cited In (only showing first 100 items - show all)

• Geometrically corrected second order analysis of events on a linear network, with applications to ecology and criminology
• On two-stage Monte Carlo tests of composite hypotheses
• Kernel density estimation on a linear network
• sphereplot
• Determinantal point process models and statistical inference
• Equivalence of MAXENT and Poisson point process models for species distribution modeling in ecology
• Spatial point patterns: methodology and applications with R
• A contingency table approach based on nearest neighbour relations for testing self and mixed correspondence
• Development and evaluation of spatial point process models for epidermal nerve fibers
• Applied Spatial Data Analysis with R
• A new metric between distributions of point processes
• gensei
• etas_solve
• DPPy
• SEDA
• osmdata
• testforDEP
• sppmix
• frac2D
• healpy
• popTRT
• hankel
• spatstat.Knet
• DRHotNet
• affluenceIndex
• MPPBLIB
• trend
• npROCRegression
• GoFKernel
• ROCnReg
• pyuvdata
• spagmix
• UPARSE
• blockCV
• Maxent
• Manifoldgstat
• GET
• ttbary
• PlaNet
• catamari
• OSMnx
• TEASER++
• INLAMSM
• inlabru
• First- and Second-Order Characteristics of Spatio-Temporal Point Processes on Linear Networks
• Ecume
• NTSS
• lacunaritycovariance
• dixon
• ecespa
• idar
• replicatedpp2w
• selectspm
• ppmlasso
• highriskzone
• rcarbon
• SpatEntropy
• spatstat.gui
• spatstat.local
• adaptsmoFMRI
• Statistical Analysis and Modelling of Spatial Point Patterns
• gfilmm
• Poisson point process models solve the ``pseudo-absence problem for presence-only data in ecology
• Overall and pairwise segregation tests based on nearest neighbor contingency tables
• bestNormalize
• lsirm12pl
• concaveman
• stlnpp
• binspp
• Modern statistics for spatial point processes (with discussion)
• Fast approximation of the intensity of Gibbs point processes
• Spatial logistic regression and change-of-support in Poisson point processes
• Two-step estimation procedures for inhomogeneous shot-noise Cox processes
• Variational approach for spatial point process intensity estimation
• Brillinger mixing of determinantal point processes and statistical applications
• Random partition models and complementary clustering of Anglo-Saxon place-names
• Monte Carlo with determinantal point processes
• Approximate methods in Bayesian point process spatial models
• Residual Analysis for Spatial Point Processes (with Discussion)
• On the strong Brillinger-mixing property of \(\alpha\)-determinantal point processes and some applications.
• noisyCE2
• Spatial point process models for location-allocation problems
• Parameter estimation for inhomogeneous space-time shot-noise Cox point processes
• Correction note: Poisson point process models solve the ``pseudo-absence problem for presence-only data in ecology
• Sliced inverse regression and independence in random marked sets with covariates
• Quantifying repulsiveness of determinantal point processes
• Modelling Spatial Point Patterns in R
• Principal component analysis of persistent homology rank functions with case studies of spatial point patterns, sphere packing and colloids
• Algorithm 247
• Investigations of the effects of random sampling schemes on the stability of generalized sampling
• Fast computation of spatially adaptive kernel estimates
• Mixing properties and central limit theorem for associated point processes
• Title not available (Why is that?)
• Estimating inter-group interaction radius for point processes with nested spatial structures
• Summary statistics for inhomogeneous marked point processes
• An Estimating Function Approach to Inference for Inhomogeneous Neyman–Scott Processes
• Comparison of relative density of two random geometric digraph families in testing spatial clustering
• BEEHAVE
• A multivariate uniformity test for the case of unknown support
• Estimating second order characteristics of point processes with known independent noise

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