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spaMM (version 1.7.2)

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). Heteroscedasticity 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

1,720

Version

1.7.2

License

CeCILL-2

Maintainer

Franois Rousset

Last Published

January 25th, 2016

Functions in spaMM (1.7.2)

designL.from.Corr

Computation of square root of correlation matrix
spaMM-internal-migraineLike

Internal spaMM Functions
HLCor

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

Interface for model formulas
make_scaled_dist

Scaled Euclidean distances between unique locations
mapMM

Colorful plots of predicted responses in two-dimensional space.
spaMM-internal

Internal spaMM Functions
multinomial

Analyzing multinomial data
corMatern

Matern Correlation Structure as a corSpatial object
fixedLRT

Likelihood ratio test of fixed effects.
confint.HLfit

Confidence intervals for fixed-effect parameters
update.HLfit

Updates an HLCor or HLfit fit
GHK_oneside

Compute GHK estimate of multivariate normal one-sided integral
options

spaMM options settings
seaMask

Masks of seas or lands
adjacency

Fitting autoregressive models
welding

Welding data set
wafers

Data from a resistivity experiment for semiconductor materials.
HLfit

Fit mixed models with given correlation matrix
LRT

Likelihood ratio test of fixed effects.
blackcap

Genetic polymorphism in relation to migration in the blackcap
arabidopsis

Arabidopsis genetic and climatic data
plot.HLfit

Model checking plots for mixed models
summary.HLfit

Summary and print methods for fit and test results.
spaMM

Inference in mixed models, in particular spatial GLMMs
seeds

Seed germination data
simulate.HLfit

Simulate realizations of a fitted mixed model.
spaMM.filled.contour

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

Loa loa prevalence in North Cameroon, 1991-2001
predict

Prediction from a model fit.
spaMM.colors

A flashy color palette.
raster

Raster plots of predicted responses
scotlip

Lip cancer in Scotland 1975 - 1980
salamander

Salamander mating data
spaMM-Rcpp-internal

Internal spaMM Functions using Rcpp/RcppEigen
MaternCorr

Matern correlation function.
extractors

Functions to extract various components of a fit
corrHLfit

Fits a mixed model, typically a spatial GLMM.