Learn R Programming

⚠️There's a newer version (5.8) of this package.Take me there.

mixAK (version 5.4)

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.

Copy Link

Version

Install

install.packages('mixAK')

Monthly Downloads

1,211

Version

5.4

License

GPL (>= 3)

Maintainer

Arnošt Komárek

Last Published

April 19th, 2022

Functions in mixAK (5.4)

Acidity index of lakes in North-Central Wisconsin

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

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

NMixChainsDerived

Create MCMC chains derived from previously sampled values

Square root of a matrix

Clustering based on the MCMC output of the mixture model

GLMM_MCMCscale.b

Handle scale.b argument of GLMM_MCMC function

Old Faithful Geyser Data

Enzymatic activity in the blood

GLMM_MCMCprior.eps

Handle prior.eps argument of GLMM_MCMC function

Chains for mixture parameters

Data manipulation for the GLMM_MCMC function

NMixRelabelAlgorithm

Argument manipulation for the NMixRelabel functions

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

NMixPlugDensMarg

Marginal (univariate) densities: plug-in estimate

NMixPredCDFMarg

Marginal (univariate) predictive cumulative distribution function

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

NMixMCMCwrapper

Wrapper to the NMixMCMC main simulation.

EM algorithm for a homoscedastic normal mixture

Dirichlet distribution

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

NMixPredCondDensMarg

Univariate conditional predictive density

Summary for the mixture components

GLMM_MCMCwrapper

Wrapper to the GLMM_MCMC main simulation.

Initial (RE)ML fits for the GLMM_MCMC function

GLMM_MCMCinit.alpha

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

Velocities of distant galaxies

Discriminant analysis for longitudinal profiles based on fitted GLMM's

Simulated dataset

Multivariate normal distribution

Discriminant analysis for longitudinal profiles based on fitted GLMM's

Discriminant analysis based on MCMC output from the mixture model

plot.NMixPlugCondDensMarg

Plot computed univariate conditional densities (plug-in estimate)

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

NMixPlugCondDensJoint2

Pairwise bivariate conditional densities: plug-in estimate

Mixture of (multivariate) normal distributions

NMixPlugCondDensMarg

Univariate conditional densities: plug-in estimate

Initial component allocations for the NMixMCMC function

Data manipulation for the NMixMCMC function

NMixPredDensJoint2

Pairwise bivariate predictive density

Multivariate Student t distribution

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

fitted.GLMM_MCMC

Fitted profiles in the GLMM model

plot.NMixPlugDensJoint2

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

NMixPredDensMarg

Marginal (univariate) predictive density

rRotationMatrix

Random rotation matrix

Sample a pair (with replacement)

NMixPredCondCDFMarg

Univariate conditional predictive cumulative distribution function

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

Moore-Penrose pseudoinverse of a squared matrix

Signal Tandmobiel data

Signal Tandmobiel data - emergence times

Truncated multivariate normal distribution

Automatic layout for several plots in one figure

NMixPlugDensJoint2

Pairwise bivariate densities: plug-in estimate

generatePermutations

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

Individual longitudinal profiles of a given variable

Truncated normal distribution

NMixPredCondDensJoint2

Pairwise bivariate conditional predictive densities

Subset of Mayo Clinic Primary Biliary Cholangitis (Cirrhosis) data

Mayo Clinic Primary Biliary Cholangitis (Cirrhosis), sequential data

Plot a function together with its confidence/credible bands

Wishart distribution

Re-labeling the MCMC output of the mixture model

Plot individual longitudinal profiles

plot.NMixPredDensMarg

Plot computed marginal predictive densities

plot.NMixPredCondCDFMarg

Plot computed univariate conditional predictive cumulative distribution functions

plot.NMixPlugCondDensJoint2

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

plot.NMixPlugDensMarg

Plot computed marginal predictive densities

plot.NMixPredCondDensJoint2

Plot computed predictive pairwise bivariate conditional densities

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

plot.NMixPredCDFMarg

Plot computed marginal predictive cumulative distribution functions

plot.NMixPredCondDensMarg

Plot computed univariate conditional predictive densities

Traceplots for selected parameters

Posterior summary statistics for a difference of two quantities

plot.NMixPredDensJoint2

Plot computed marginal pairwise bivariate predictive densities