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mixAK (version 5.7)

Multivariate Normal Mixture Models and Mixtures of Generalized Linear Mixed Models Including Model Based Clustering

Description

Contains a mixture of statistical methods including the MCMC methods to analyze normal mixtures. Additionally, model based clustering methods are implemented to perform classification based on (multivariate) longitudinal (or otherwise correlated) data. The basis for such clustering is a mixture of multivariate generalized linear mixed models.

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Version

Install

install.packages('mixAK')

Monthly Downloads

326

Version

5.7

License

GPL (>= 3)

Maintainer

Arnošt Komárek

Last Published

December 14th, 2023

Functions in mixAK (5.7)

Acidity index of lakes in North-Central Wisconsin

Best linear approximation with respect to the mean square error (theoretical linear regression).

Discriminant analysis for longitudinal profiles based on fitted GLMM's

GLMM_MCMCwrapper

Wrapper to the GLMM_MCMC main simulation.

Enzymatic activity in the blood

Square root of a matrix

Initial (RE)ML fits for the GLMM_MCMC function

Discriminant analysis for longitudinal profiles based on fitted GLMM's

Velocities of distant galaxies

EM algorithm for a homoscedastic normal mixture

GLMM_MCMCinit.alpha

Handle init.alpha or init2.alpha argument of GLMM_MCMC function

Old Faithful Geyser Data

MCMC estimation of a (multivariate) generalized linear mixed model with a normal mixture in the distribution of random effects

Chains for mixture parameters

MCMC estimation of (multivariate) normal mixtures with possibly censored data.

Data manipulation for the GLMM_MCMC function

NMixMCMCwrapper

Wrapper to the NMixMCMC main simulation.

NMixRelabelAlgorithm

Argument manipulation for the NMixRelabel functions

Initial values of censored observations for the NMixMCMC function

GLMM_MCMCprior.alpha

Handle prior.alpha argument of GLMM_MCMC function

GLMM_MCMCprior.b

Handle prior.eps argument of GLMM_MCMC function

Dirichlet distribution

Data manipulation for the NMixMCMC function

NMixPlugCondDensJoint2

Pairwise bivariate conditional densities: plug-in estimate

Truncated multivariate normal distribution

Summary for the mixture components

GLMM_MCMCscale.b

Handle scale.b argument of GLMM_MCMC function

GLMM_MCMCprior.eps

Handle prior.eps argument of GLMM_MCMC function

NMixPlugCondDensMarg

Univariate conditional densities: plug-in estimate

Initial component allocations for the NMixMCMC function

NMixPredDensJoint2

Pairwise bivariate predictive density

Multivariate Student t distribution

GLMM_MCMCinit.b

Handle init.b or init2.b argument of GLMM_MCMC function

GLMM_MCMCinit.eps

Handle init.eps or init2.eps argument of GLMM_MCMC function

Individual longitudinal profiles of a given variable

Truncated normal distribution

Wishart distribution

NMixPredDensMarg

Marginal (univariate) predictive density

NMixPredCondDensMarg

Univariate conditional predictive density

Multivariate normal distribution

Transform fitted distribution of Y=trans(T) into distribution of T

Discriminant analysis based on MCMC output from the mixture model

Mixture of (multivariate) normal distributions

NMixPlugDensMarg

Marginal (univariate) densities: plug-in estimate

Moore-Penrose pseudoinverse of a squared matrix

Subset of Mayo Clinic Primary Biliary Cholangitis (Cirrhosis) data

Mayo Clinic Primary Biliary Cholangitis (Cirrhosis), sequential data

NMixChainsDerived

Create MCMC chains derived from previously sampled values

Clustering based on the MCMC output of the mixture model

NMixPredCDFMarg

Marginal (univariate) predictive cumulative distribution function

plot.NMixPredCondCDFMarg

Plot computed univariate conditional predictive cumulative distribution functions

plot.NMixPlugCondDensJoint2

Plot computed pairwise bivariate conditional densities (plug-in estimate)

NMixPredCondCDFMarg

Univariate conditional predictive cumulative distribution function

plot.NMixPredCondDensJoint2

Plot computed predictive pairwise bivariate conditional densities

Automatic layout for several plots in one figure

plot.NMixPlugCondDensMarg

Plot computed univariate conditional densities (plug-in estimate)

Pseudo goodness-of-fit test for a normal mixture model

Re-labeling the MCMC output of the mixture model

Plot a function together with its confidence/credible bands

NMixPredCondDensJoint2

Pairwise bivariate conditional predictive densities

Signal Tandmobiel data

Discriminant analysis based on plug-in estimates from the mixture model

NMixPlugDensJoint2

Pairwise bivariate densities: plug-in estimate

plot.NMixPlugDensMarg

Plot computed marginal predictive densities

plot.NMixPredCDFMarg

Plot computed marginal predictive cumulative distribution functions

Conversion of a symmetric matrix stored in a packed format (lower triangle only) into a matrix

plot.NMixPredDensMarg

Plot computed marginal predictive densities

Plot individual longitudinal profiles

Signal Tandmobiel data - emergence times

plot.NMixPlugDensJoint2

Plot computed marginal pairwise bivariate densities (plug-in estimate)

fitted.GLMM_MCMC

Fitted profiles in the GLMM model

Simulated dataset

Posterior summary statistics for a difference of two quantities

rRotationMatrix

Random rotation matrix

Sample a pair (with replacement)

Traceplots for selected parameters

generatePermutations

Generate all permutations of (1, ..., K)

plot.NMixPredCondDensMarg

Plot computed univariate conditional predictive densities

plot.NMixPredDensJoint2

Plot computed marginal pairwise bivariate predictive densities