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spaMM (version 1.6.2)

Mixed Models, Particularly Spatial GLMMs

Description

Inference in mixed models, including GLMMs with spatial correlations and models with non-Gaussian random effects (e.g., Beta Binomial, or negative-binomial mixed models). Heteroskedasticity can further be fitted by a linear model. The algorithms are currently various Laplace approximations methods for ML or REML, in particular h-likelihood and penalized-likelihood methods.

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Version

Install

install.packages('spaMM')

Monthly Downloads

4,103

Version

1.6.2

License

CeCILL-2

Maintainer

Franois Rousset

Last Published

November 1st, 2015

Functions in spaMM (1.6.2)

blackcap

Genetic polymorphism in relation to migration in the blackcap
fixedLRT

Likelihood ratio test of fixed effects.
MaternCorr

Matern correlation function.
mapMM

Colorful plots of predicted responses in two-dimensional space.
wafers

Data from a resistivity experiment for semiconductor materials.
scotlip

Lip cancer in Scotland 1975 - 1980
Loaloa

Loa loa prevalence in North Cameroon, 1991-2001
welding

Welding data set
Predictor

Interface for model formulas
spaMM.colors

A flashy color palette.
LRT

Likelihood ratio test of fixed effects.
make_scaled_dist

Scaled Euclidean distances between unique locations
update.HLfit

Updates an HLCor or HLfit fit
arabidopsis

Arabidopsis genetic and climatic data
confint.HLfit

Confidence intervals for fixed-effect parameters
multinomial

Analyzing multinomial data
seeds

Seed germination data
corrHLfit

Fits a mixed model, typically a spatial GLMM.
raster

Raster plots of predicted responses
simulate.HLfit

Simulate realizations of a fitted mixed model.
summary.HLfit

Summary and print methods for fit and test results.
spaMM.filled.contour

Level (Contour) Plots with better aspect ratio control (for geographical maps, at least)
predict

Prediction from a model fit.
GHK_oneside

Compute GHK estimate of multivariate normal one-sided integral
corMatern

Matern Correlation Structure as a corSpatial object
adjacency

Fitting autoregressive models
HLfit

Fit mixed models with given correlation matrix
spaMM-internal

Internal spaMM Functions
salamander

Salamander mating data
options

spaMM options settings
plot.HLfit

Model checking plots for mixed models
spaMM

Inference in mixed models, in particular spatial GLMMs
designL.from.Corr

Computation of square root of correlation matrix
seaMask

Masks of seas or lands
spaMM-internal-migraineLike

Internal spaMM Functions
HLCor

Fits a (spatially) correlated mixed model, for given correlation parameters
extractors

Functions to extract various components of a fit
spaMM-Rcpp-internal

Internal spaMM Functions using Rcpp/RcppEigen