AIC                     Extractors for information criteria such as AIC
COMPoisson              Conway-Maxwell-Poisson (COM-Poisson) GLM family
CauchyCorr              Cauchy correlation function and Cauchy formula
                        term
HLCor                   Fits a (spatially) correlated mixed model, for
                        given correlation parameters
HLfit                   Fit mixed models with given correlation matrix
LRT                     Likelihood ratio test of fixed effects.
Loaloa                  Loa loa prevalence in North Cameroon, 1991-2001
MSFDR                   Multiple-Stage False Discovery Rate procedure
MaternCorr              Matern correlation function and Matern formula
                        term.
Poisson                 Family function for GLMs and mixed models with
                        Poisson and zero-truncated Poisson response.
ZAXlist                 ZAXlist class and (cross) products for ZAL
                        matrix
adjlg                   Simulated data set for testing sparse-precision
                        code
arabidopsis             Arabidopsis genetic and climatic data
autoregressive          Fitting autoregressive models
blackcap                Genetic polymorphism in relation to migration
                        in the blackcap
confint.HLfit           Confidence intervals
convergence             Assessing convergence for fitted models
corMatern               Matern Correlation Structure as a corSpatial
                        object
corrHLfit               Fits a mixed model, typically a spatial GLMM.
corrMatrix              Using a corrMatrix argument
corr_family             'corr_family' objects
covStruct               Specifying correlation structures
dopar                   Interface for parallel computations
eval_replicate          Evaluating bootstrap replicates
external-libraries      Installing external libraries
extractors              Functions to extract various components of a
                        fit
fitme                   Fitting function for fixed- and mixed-effect
                        models with GLM response.
fix_predVar             Prediction from models with nearly-singular
                        covariance matrices
fixed                   Fixing some parameters
fixedLRT                Likelihood ratio test of fixed effects.
freight                 Freight dataset
get_cPredVar            Estimation of prediction variance with
                        bootstrap correction
get_inits_from_fit      Initiate a fit from another fit
get_matrix              Extract matrices from a fit
get_ranPars             Operations on lists of parameters. A distinct
                        documentation exists for 'get_inits_from_fit'
                        which is most useful to extract parameters from
                        a fit in a form suitable to initialize another
                        fit. 'VarCorr' is yet another extractor for
                        dispersion parameters.
good-practice           Clear and trustworthy formulas
hatvalues.HLfit         Leverage extractor for HLfit objects
how                     Extract information about how an object was
                        obtained
inverse.Gamma           Distribution families for Gamma and inverse
                        Gamma-distributed random effects
is_separated            Checking for (quasi-)separation in
                        binomial-response model.
make_scaled_dist        Scaled distances between unique locations
mapMM                   Colorful plots of predicted responses in
                        two-dimensional space.
mat_sqrt                Computation of "square root" of symmetric
                        positive definite matrix
method                  Fitting methods (objective functions maximized)
multIMRF                Interpolated Markov Random Field models
multinomial             Analyzing multinomial data
negbin                  Family function for GLMs and mixed models with
                        negative binomial and zero-truncated negative
                        binomial response.
pedigree                Fit mixed-effects models incorporating
                        pedigrees
phiHGLM                 Fitting random effects in the residual
                        dispersion model
plot.HLfit              Model checking plots for mixed models
plot_effects            Partial-dependence effects and plots
post-fit                Applying post-fit procedures on spaMM results
predict                 Prediction from a model fit.
random-effects          Structure of random effects
rankinfo                Checking the rank of the fixed-effects design
                        matrix
salamander              Salamander mating data
scotlip                 Lip cancer in Scotland 1975 - 1980
seaMask                 Masks of seas or lands
seeds                   Seed germination data
simulate.HLfit          Simulate realizations of a fitted model.
spaMM                   Inference in mixed models, in particular
                        spatial GLMMs
spaMM-conventions       spaMM conventions and differences from related
                        fitting procedures
spaMM.colors            A flashy color palette.
spaMM.filled.contour    Level (Contour) Plots with better aspect ratio
                        control (for geographical maps, at least)
spaMM.options           spaMM options settings
spaMM_boot              Parametric bootstrap
spaMM_glm.fit           Fitting generalized linear models without
                        initial-value or divergence headaches
sparse_precision        Sparse_precision algorithm
stripHLfit              Reduce the size of fitted objects
summary.HLfit           Summary and print methods for fit and test
                        results.
update.HLfit            Updates a fit
vcov                    Extract covariance or correlation components
                        from a fitted model object
wafers                  Data from a resistivity experiment for
                        semiconductor materials.
welding                 Welding data set
