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MCMCglmm (version 2.35)
MCMC Generalised Linear Mixed Models
Description
Fits Multivariate Generalised Linear Mixed Models (and related models) using Markov chain Monte Carlo techniques (Hadfield 2010 J. Stat. Soft.).
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2.35
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Install
install.packages('MCMCglmm')
Monthly Downloads
4,877
Version
2.35
License
GPL (>= 2)
Maintainer
Jarrod Hadfield
Last Published
June 30th, 2023
Functions in MCMCglmm (2.35)
Search functions
dcmvnorm
Density of a (conditional) multivariate normal variate
PlodiaRB
Resistance (as a binary trait) of Indian meal moth caterpillars to the granulosis virus PiGV.
buildV
Forms expected (co)variances for GLMMs fitted with MCMCglmm
krzanowski.test
Krzanowski's Comparison of Subspaces
Ptensor
Tensor of Sample (Mixed) Central Moments
knorm
(Mixed) Central Moments of a Multivariate Normal Distribution
mult.memb
Design Matrices for Multiple Membership Models
evalDtensor
Evaluates a list of (mixed) partial derivatives
path
Design Matrix for Path Analyses
pkk
Probability that all multinomial categories have a non-zero count.
me
Design Matrix for Measurement Error Model
plot.MCMCglmm
Plots MCMC chains from MCMCglmm using plot.mcmc
SShorns
Horn type and genders of Soay Sheep
Tri2M
Lower/Upper Triangle Elements of a Matrix
at.level
Incidence Matrix of Levels within a Factor
at.set
Incidence Matrix of Combined Levels within a Factor
inverseA
Inverse Relatedness Matrix and Phylogenetic Covariance Matrix
prunePed
Pedigree pruning
commutation
Commutation Matrix
rIW
Random Generation from the Conditional Inverse Wishart Distribution
posterior.ante
Posterior distribution of ante-dependence parameters
gelman.prior
Prior Covariance Matrix for Fixed Effects.
simulate.MCMCglmm
Simulate method for GLMMs fitted with MCMCglmm
posterior.mode
Estimates the marginal parameter modes using kernel density estimation
posterior.cor
Transforms posterior distribution of covariances into correlations
summary.MCMCglmm
Summarising GLMM Fits from MCMCglmm
predict.MCMCglmm
Predict method for GLMMs fitted with MCMCglmm
sir
Design Matrix for Simultaneous and Recursive Relationships between Responses
rbv
Random Generation of MVN Breeding Values and Phylogenetic Effects
residuals.MCMCglmm
Residuals form a GLMM fitted with MCMCglmm
rtnorm
Random Generation from a Truncated Normal Distribution
kunif
Central Moments of a Uniform Distribution
posterior.inverse
Posterior distribution of matrix inverse
plotsubspace
Plots covariance matrices
sm2asreml
Converts sparseMatrix to asreml's giv format
spl
Orthogonal Spline Design Matrix
posterior.evals
Posterior distribution of eigenvalues
list2bdiag
Forms the direct sum from a list of matrices
rtcmvnorm
Random Generation from a Truncated Conditional Normal Distribution
KPPM
Kronecker Product Permutation Matrix
MCMCglmm-package
Multivariate Generalised Linear Mixed Models
Dexpressions
List of unevaluated expressions for (mixed) partial derivatives of fitness with respect to linear predictors.
PlodiaPO
Phenoloxidase measures on caterpillars of the Indian meal moth.
PlodiaR
Resistance of Indian meal moth caterpillars to the granulosis virus PiGV.
Ddivergence
d-divergence
BTped
Blue Tit Pedigree
BTdata
Blue Tit Data for a Quantitative Genetic Experiment
MCMCglmm
Multivariate Generalised Linear Mixed Models
Dtensor
Tensor of (mixed) partial derivatives