A.mat                   Additive relationship matrix
AR1                     Autocorrelation matrix of order 1.
ARMA                    Autocorrelation Moving average.
CS                      Compound symmetry matrix
D.mat                   Dominance relationship matrix
E.mat                   Epistatic relationship matrix
GWAS                    Genome wide association study analysis
H.mat                   Combined relationship matrix H
MNR                     Multivariate Newton-Raphson algorithm
anova.mmes              anova form a GLMM fitted with mmes
atm                     atm covariance structure
coef.mmes               coef form a GLMM fitted with mmes
corImputation           Imputing a matrix using correlations
covm                    covariance between random effects
csm                     customized covariance structure
dfToMatrix              data frame to matrix
dsm                     diagonal covariance structure
fitted.mmes             fitted form a LMM fitted with mmes
fixm                    fixed indication matrix
ism                     identity covariance structure
mmer                    *m*ixed *m*odel *e*quations for *r* records
mmes                    *m*ixed *m*odel *e*quations *s*olver
plot.mmes               plot form a LMM plot with mmes
pmonitor                plot the change of VC across iterations
predict.mmes            Predict form of a LMM fitted with mmes
r2                      Reliability
randef                  extracting random effects
residuals.mmes          Residuals form a GLMM fitted with mmes
sommer                  *So*lving *M*ixed *M*odel *E*quations in *R*
spl2Dc                  Two-dimensional penalised tensor-product of
                        marginal B-Spline basis.
spl2Dmats               Get Tensor Product Spline Mixed Model Incidence
                        Matrices
summary.mmer            summary form a GLMM fitted with mmer
summary.mmes            summary form a GLMM fitted with mmes
tpsmmbwrapper           Get Tensor Product Spline Mixed Model Incidence
                        Matrices
unsm                    unstructured indication matrix
usm                     unstructured covariance structure
vpredict                vpredict form of a LMM fitted with mmes
vs                      variance structure specification
vsm                     variance structure specification
vsr                     variance structure specification
