MCMC Generalised Linear Mixed Models


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Documentation for package ‘MCMCglmm’ version 2.01

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MCMCglmm-package Multivariate Generalised Linear Mixed Models
at.level Incidence Matrix of Levels within a Factor
at.set Incidence Matrix of Combined Levels within a Factor
BTdata Blue Tit Data for a Quantitative Genetic Experiment
BTped Blue Tit Pedigree
commutation Commutation Matrix
Ddivergence d-divergence
Dexpressions List of unevaluated expressions for (mixed) partial derivatives of fitness with respect to linear predictors.
Dtensor Tensor of (mixed) partial derivatives
evalDtensor Evaluates a list of (mixed) partial derivatives
inverseA Inverse Relatedness Matrix and Phylogenetic Covariance Matrix
knorm (Mixed) Central Moments of a Multivariate Normal Distribution
KPPM Kronecker Product Permutation Matrix
krzanowski.test Krzanowski's Comparison of Subspaces
kunif Central Moments of a Uniform Distribution
leg Evaluates Orthogonal Legendre Polynomials
list2bdiag Forms the direct sum from a list of matrices
MCMCglmm Multivariate Generalised Linear Mixed Models
PlodiaPO Phenoloxidase measures on caterpillars of the Indian meal moth.
PlodiaR Resistance of Indian meal moth caterpillars to the granulosis virus PiGV.
PlodiaRB Resistance (as a binary trait) of Indian meal moth caterpillars to the granulosis virus PiGV.
plotprior Histogram of draws from the prior distribution for the variance structure of an MCMCglmm model
plotsubspace Plots covariance matrices
posterior.cor Transforms posterior distribution of covariances into correlations
posterior.evals Posterior distribution of eigenvalues
posterior.mode Estimates the marginal parameter modes using kernel density estimation
prunePed Pedigree pruning
Ptensor Tensor of Sample (Mixed) Central Moments
rbv Random Generation of MVN Breeding Values and Phylogenetic Effects
rIW Random Generation from the Conditional Inverse Wishart Distribution
rtnorm Random Generation from a Truncated Normal Distribution
sm2asreml Converts sparseMatrix to asreml's giv format
SShorns Horn type and genders of Soay Sheep
Tri2M Lower/Upper Triangle Elements of a Matrix