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MCMCglmm (version 2.32)

MCMC Generalised Linear Mixed Models

Description

Fits Multivariate Generalised Linear Mixed Models (and related models) using Markov chain Monte Carlo techniques.

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Version

Install

install.packages('MCMCglmm')

Monthly Downloads

7,376

Version

2.32

License

GPL (>= 2)

Maintainer

Jarrod Hadfield

Last Published

March 12th, 2021

Functions in MCMCglmm (2.32)

MCMCglmm-package

Multivariate Generalised Linear Mixed Models

PlodiaPO

Phenoloxidase measures on caterpillars of the Indian meal moth.

Ddivergence

d-divergence

Dexpressions

List of unevaluated expressions for (mixed) partial derivatives of fitness with respect to linear predictors.

BTdata

Blue Tit Data for a Quantitative Genetic Experiment

PlodiaR

Resistance of Indian meal moth caterpillars to the granulosis virus PiGV.

KPPM

Kronecker Product Permutation Matrix

MCMCglmm

Multivariate Generalised Linear Mixed Models

dcmvnorm

Density of a (conditional) multivariate normal variate

evalDtensor

Evaluates a list of (mixed) partial derivatives

Dtensor

Tensor of (mixed) partial derivatives

SShorns

Horn type and genders of Soay Sheep

kunif

Central Moments of a Uniform Distribution

posterior.ante

Posterior distribution of ante-dependence parameters

posterior.cor

Transforms posterior distribution of covariances into correlations

list2bdiag

Forms the direct sum from a list of matrices

commutation

Commutation Matrix

gelman.prior

Prior Covariance Matrix for Fixed Effects.

buildV

Forms expected (co)variances for GLMMs fitted with MCMCglmm

Tri2M

Lower/Upper Triangle Elements of a Matrix

path

Design Matrix for Path Analyses

BTped

Blue Tit Pedigree

pkk

Probability that all multinomial categories have a non-zero count.

Krzanowski's Comparison of Subspaces

posterior.evals

Posterior distribution of eigenvalues

posterior.inverse

Posterior distribution of matrix inverse

residuals.MCMCglmm

Residuals form a GLMM fitted with MCMCglmm

knorm

(Mixed) Central Moments of a Multivariate Normal Distribution

rbv

Random Generation of MVN Breeding Values and Phylogenetic Effects

Ptensor

Tensor of Sample (Mixed) Central Moments

PlodiaRB

Resistance (as a binary trait) of Indian meal moth caterpillars to the granulosis virus PiGV.

rIW

Random Generation from the Conditional Inverse Wishart Distribution

plotsubspace

Plots covariance matrices

plot.MCMCglmm

Plots MCMC chains from MCMCglmm using plot.mcmc

at.level

Incidence Matrix of Levels within a Factor

summary.MCMCglmm

Summarising GLMM Fits from MCMCglmm

rtcmvnorm

Random Generation from a Truncated Conditional Normal Distribution

at.set

Incidence Matrix of Combined Levels within a Factor

predict.MCMCglmm

Predict method for GLMMs fitted with MCMCglmm

posterior.mode

Estimates the marginal parameter modes using kernel density estimation

rtnorm

Random Generation from a Truncated Normal Distribution

sir

Design Matrix for Simultaneous and Recursive Relationships between Responses

Design Matrix for Measurement Error Model

sm2asreml

Converts sparseMatrix to asreml's giv format

mult.memb

Design Matrices for Multiple Membership Models

simulate.MCMCglmm

Simulate method for GLMMs fitted with MCMCglmm

spl

Orthogonal Spline Design Matrix