A B C D E F G H I L M N O P R S T U V W Z misc
spaMM-package | Inference in mixed models, in particular spatial GLMMs |
adjacency | Fitting autoregressive models |
adjlg | Simulated data set for testing sparse-precision code |
adjlgMat | Simulated data set for testing sparse-precision code |
AIC | Extractors for informations criteria such as AIC |
AIC.HLfit | Extractors for informations criteria such as AIC |
anova | Likelihood ratio test of fixed effects. |
anova.HLfit | Likelihood ratio test of fixed effects. |
AR1 | Fitting autoregressive models |
arabidopsis | Arabidopsis genetic and climatic data |
as_precision | Specifying correlation structures |
autoregressive | Fitting autoregressive models |
Beta | Fit mixed models with given correlation matrix |
Beta-distribution-random-effects | Fit mixed models with given correlation matrix |
beta_table | Extract covariance or correlation matrices from a fitted model object |
binomialize | Analyzing multinomial data |
blackcap | Genetic polymorphism in relation to migration in the blackcap |
CAR | Fitting autoregressive models |
Cauchy | Cauchy correlation function and Cauchy formula term |
CauchyCorr | Cauchy correlation function and Cauchy formula term |
class:missingOrNULL | ZAXlist class and (cross) products for ZAL matrix |
class:ZAXlist | ZAXlist class and (cross) products for ZAL matrix |
coef.corMatern | Matern Correlation Structure as a corSpatial object |
coef<-.corMatern | Matern Correlation Structure as a corSpatial object |
COMPoisson | Conway-Maxwell-Poisson (COM-Poisson) GLM family |
confint | Confidence intervals for fixed-effect parameters |
confint.HLfit | Confidence intervals for fixed-effect parameters |
corFactor.corMatern | Matern Correlation Structure as a corSpatial object |
corMatern | Matern Correlation Structure as a corSpatial object |
corMatrix.corMatern | Matern Correlation Structure as a corSpatial object |
Corr | Extract covariance or correlation matrices from a fitted model object |
corrHLfit | Fits a mixed model, typically a spatial GLMM. |
corrMatrix | Using a corrMatrix argument |
corr_family | 'corr_family' objects |
covStruct | Specifying correlation structures |
crossprod-method | ZAXlist class and (cross) products for ZAL matrix |
crossprod-methods | ZAXlist class and (cross) products for ZAL matrix |
designL.from.Corr | Computation of "square root" of correlation matrix |
deviance | Functions to extract various components of a fit |
deviance.HLfit | Functions to extract various components of a fit |
dev_resids | Functions to extract various components of a fit |
Earth | Scaled distances between unique locations |
EarthChord | Scaled distances between unique locations |
etaFix | Fixing some parameters |
extractAIC | Extractors for informations criteria such as AIC |
extractAIC.HLfit | Extractors for informations criteria such as AIC |
extractors | Functions to extract various components of a fit |
family | Functions to extract various components of a fit |
family.HLfit | Functions to extract various components of a fit |
filled.mapMM | Colorful plots of predicted responses in two-dimensional space. |
fitme | Fitting function for fixed- and mixed-effect models with GLM response. |
fitted | Functions to extract various components of a fit |
fitted.HLfit | Functions to extract various components of a fit |
fitted.HLfitlist | Analyzing multinomial data |
fixed | Fixing some parameters |
fixedLRT | Likelihood ratio test of fixed effects. |
fixef | Functions to extract various components of a fit |
fixef.HLfit | Functions to extract various components of a fit |
formula | Functions to extract various components of a fit |
formula.HLfit | Functions to extract various components of a fit |
freight | Freight dataset |
Gamma | Distribution families for Gamma and inverse Gamma-distributed random effects |
geometric | Conway-Maxwell-Poisson (COM-Poisson) GLM family |
getCovariate.corMatern | Matern Correlation Structure as a corSpatial object |
getDistMat | Functions to extract various components of a fit |
get_any_IC | Extractors for informations criteria such as AIC |
get_fixefVar | Prediction from a model fit. |
get_intervals | Prediction from a model fit. |
get_matrix | Extract matrices from a fit |
get_predCov_var_fix | Prediction from a model fit. |
get_predVar | Prediction from a model fit. |
get_rankinfo | Checking the rank of the fixed-effects design matrix |
get_ranPars | Operations on lists of parameters |
get_residVar | Prediction from a model fit. |
get_respVar | Prediction from a model fit. |
get_RLRTSim_args | Functions to extract various components of a fit |
get_ZALMatrix | Extract matrices from a fit |
good-practice | Clear and trustworthy formulas |
HLCor | Fits a (spatially) correlated mixed model, for given correlation parameters |
HLfit | Fit mixed models with given correlation matrix |
how | Extract information about how an object was obtained |
how.default | Extract information about how an object was obtained |
how.HLfit | Extract information about how an object was obtained |
IMRF | Interpolated Markov Random Field models |
Initialize.corMatern | Matern Correlation Structure as a corSpatial object |
intervals | Prediction from a model fit. |
inverse.Gamma | Distribution families for Gamma and inverse Gamma-distributed random effects |
is_separated | Checking for (quasi-)separation in binomial-response model. |
landMask | Masks of seas or lands |
LevenbergM | spaMM options settings |
Loaloa | Loa loa prevalence in North Cameroon, 1991-2001 |
logDet.corMatern | Matern Correlation Structure as a corSpatial object |
logLik | Functions to extract various components of a fit |
logLik.HLfit | Functions to extract various components of a fit |
logLik.HLfitlist | Analyzing multinomial data |
LRT | Likelihood ratio test of fixed effects. |
make_scaled_dist | Scaled distances between unique locations |
mapMM | Colorful plots of predicted responses in two-dimensional space. |
Matern | Matern correlation function and Matern formula term. |
MaternCorr | Matern correlation function and Matern formula term. |
MaternCorr.default | Matern correlation function and Matern formula term. |
mat_sqrt | Computation of "square root" of symmetric positive definite matrix |
missingOrNULL | ZAXlist class and (cross) products for ZAL matrix |
missingOrNULL-class | ZAXlist class and (cross) products for ZAL matrix |
model.frame.HLfit | Functions to extract various components of a fit |
model.matrix.HLfit | Functions to extract various components of a fit |
MSFDR | Multiple-Stage False Discovery Rate procedure |
multi | Analyzing multinomial data |
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. |
Nmatrix | Lip cancer in Scotland 1975 - 1980 |
nobs | Functions to extract various components of a fit |
nobs.HLfit | Functions to extract various components of a fit |
oceanmask | Masks of seas or lands |
pdep_effects | Partial-dependence effects and plots |
pedigree | Fit mixed-effects models incorporating pedigrees |
phiHGLM | Fitting random effects in the residual dispersion model |
plot | Model checking plots for mixed models |
plot.HLfit | Model checking plots for mixed models |
plot_effects | Partial-dependence effects and plots |
Poisson | Family function for GLMs and mixed models with Poisson and zero-truncated Poisson response. |
predict | Prediction from a model fit. |
predict.HLfit | Prediction from a model fit. |
Predictor | Specifying correlation structures |
preprocess_fix_corr | Prediction from a model fit. |
Summary and print methods for fit and test results. | |
print.corr_family | 'corr_family' objects |
print.fixedLRT | Summary and print methods for fit and test results. |
print.HLfit | Summary and print methods for fit and test results. |
print.HLfitlist | Summary and print methods for fit and test results. |
print.ranef | Functions to extract various components of a fit |
ranCoefs | Fixing some parameters |
ranef | Functions to extract various components of a fit |
ranef.HLfit | Functions to extract various components of a fit |
ranFix | Fixing some parameters |
rankinfo | Checking the rank of the fixed-effects design matrix |
ranPars | Fixing some parameters |
recalc.corMatern | Matern Correlation Structure as a corSpatial object |
refit | Updates a fit |
remove_from_parlist | Operations on lists of parameters |
residuals | Functions to extract various components of a fit |
residuals.HLfit | Functions to extract various components of a fit |
response | Functions to extract various components of a fit |
rho.mapping | Scaled distances between unique locations |
salamander | Salamander mating data |
SAR_WWt | 'corr_family' objects |
scotlip | Lip cancer in Scotland 1975 - 1980 |
seaMask | Masks of seas or lands |
seeds | Seed germination data |
separation | Checking separation in binomial-response models |
simulate | Simulate realizations of a fitted model. |
simulate.HLfit | Simulate realizations of a fitted model. |
simulate.HLfitlist | Simulate realizations of a fitted model. |
small_spde | Interpolated Markov Random Field models |
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.getOption | spaMM options settings |
spaMM.options | spaMM options settings |
spaMMplot2D | Colorful plots of predicted responses in two-dimensional space. |
spaMM_boot | Parametric bootstrap |
spaMM_glm | Fitting generalized linear models without initial-value or divergence headaches |
spaMM_glm.fit | Fitting generalized linear models without initial-value or divergence headaches |
sparse_precision | Sparse_precision algorithm |
str.inla.spde2 | Interpolated Markov Random Field models |
stripHLfit | Reduce the size of fitted objects |
summary | Summary and print methods for fit and test results. |
summary.fixedLRT | Summary and print methods for fit and test results. |
summary.HLfit | Summary and print methods for fit and test results. |
summary.HLfitlist | Summary and print methods for fit and test results. |
sym_eigen | Singular Value Decomposition of a Symmetric Matrix |
tcrossprod-method | ZAXlist class and (cross) products for ZAL matrix |
tcrossprod-methods | ZAXlist class and (cross) products for ZAL matrix |
terms | Functions to extract various components of a fit |
terms.HLfit | Functions to extract various components of a fit |
Tnegbin | Family function for GLMs and mixed models with negative binomial and zero-truncated negative binomial response. |
Tpoisson | Family function for GLMs and mixed models with Poisson and zero-truncated Poisson response. |
update | Updates a fit |
update.HLfit | Updates a fit |
update_resp | Updates a fit |
Variogram.corMatern | Matern Correlation Structure as a corSpatial object |
vcov | Extract covariance or correlation matrices from a fitted model object |
vcov.HLfit | Extract covariance or correlation matrices from a fitted model object |
wafers | Data from a resistivity experiment for semiconductor materials. |
welding | Welding data set |
worldcountries | Masks of seas or lands |
ZAXlist | ZAXlist class and (cross) products for ZAL matrix |
ZAXlist-class | ZAXlist class and (cross) products for ZAL matrix |
%*%-method | ZAXlist class and (cross) products for ZAL matrix |
%*%-methods | ZAXlist class and (cross) products for ZAL matrix |