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dmbc (version 0.3.0)

Model Based Clustering of Binary Dissimilarity Measurements

Description

Functions for fitting a Bayesian model for grouping binary dissimilarity matrices in homogeneous clusters. Currently, it includes methods only for binary data.

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Version

Install

install.packages('dmbc')

Monthly Downloads

242

Version

0.3.0

License

GPL (>= 2)

Maintainer

Sergio Venturini

Last Published

June 12th, 2020

Functions in dmbc (0.3.0)

dmbc_control

Auxiliary Function for Controlling DMBC Model Fitting
dmbc_fit

Fitter function for DMBC models.
dmbc_get_configuration

Extractor function for a fitted DMBC model.
dmbc_fit-class

An S4 class to represent the results of fitting DMBC model.
dmbc_get_map

Extractor function for a fitted DMBC model.
dmbc_logLik

Log-likelihood for DMBC models.
dmbc_init

Function to compute the starting values before fitting a DMBC models.
dmbc_fit_list-class

An S4 class to represent the results of fitting DMBC model.
dmbc_fit_list_to_list

Conversion of an dmbc_fit_list object to a list.
dmbc_get_ml

Extractor function for a fitted DMBC model.
dmbc_get_postmean

Extractor function for a fitted DMBC model.
dmbc-package

Model-Based Clustering of Several Dissimilarity Matrices.
initialize,dmbc_ic-method

Create an instance of the dmbc_ic class using new/initialize.
show,dmbc_config-method

Show an instance of the dmbc_config class.
initialize,dmbc_fit_list-method

Create an instance of the dmbc_fit_list class using new/initialize.
plot,dmbc_config,ANY-method

Provide a graphical summary of a dmbc_config class instance.
initialize,dmbc_config-method

Create an instance of the dmbc_config class using new/initialize.
mdsic

Information criterion for Bayesian multidimensional scaling (BMDS).
dmbc_prior

Auxiliary Function for Setting DMBC Model Priors
plot,dmbc_ic,ANY-method

Provide a graphical summary of a dmbc_ic class instance.
plot,dmbc_fit_list,ANY-method

Provide a graphical summary of a dmbc_fit_list class instance.
dmbc_fit_list_to_mcmc.list

Conversion of an dmbc_fit_list object to an object of class mcmc.list.
dmbc_check_groups

Auxiliary function for checking the grouping results of a fitted DMBC model.
simdiss

Simulated binary dissimilarity matrices.
show,dmbc_data-method

Show an instance of the dmbc_data class.
subset,dmbc_fit-method

Subsetting a dmbc_fit object.
dmbc_config-class

An S4 class to represent the latent configuration estimate for a DMBC model.
dmbc_get_postmedian

Extractor function for a fitted DMBC model.
dmbc_fit_to_mcmc

Conversion of an dmbc_fit object to an object of class mcmc.
dmbc_ic-class

An S4 class to represent the comparison of a set of DMBC models.
kinship

List of binary dissimilarity matrices among 15 kinship terms.
initialize,dmbc_model-method

Create an instance of the dmbc_model class using new/initialize.
show,dmbc_ic-method

Show an instance of the dmbc_ic class.
show,dmbc_model-method

Show an instance of the dmbc_model class.
initialize,dmbc_data-method

Create an instance of the dmbc_data class using new/initialize.
show,dmbc_fit_list-method

Show an instance of the dmbc_fit_list class.
dmbc_data-class

An S4 class to represent the data to use in a DMBC model.
show,dmbc_fit-method

Show an instance of the dmbc_fit class.
initialize,dmbc_fit-method

Create an instance of the dmbc_fit class using new/initialize.
summary,dmbc_fit_list-method

Provide a summary of a dmbc_fit_list class instance.
subset,dmbc_fit_list-method

Subsetting a dmbc_fit_list object.
summary,dmbc_ic-method

Provide a summary of a dmbc_ic class instance.
summary,dmbc_config-method

Provide a summary of a dmbc_config class instance.
dmbc_logLik_rbmds

Log-likelihood for DMBC models.
dmbc_match_groups

Auxiliary function for realigning the grouping of a fitted DMBC model.
dmbc_mcmc

Internal functions for MCMC simulation.
dmbc_model-class

An S4 class to represent a DMBC model.
plot,dmbc_data,ANY-method

Provide a graphical summary of a dmbc_data class instance.
summary,dmbc_data-method

Provide a summary of a dmbc_data class instance.
update,dmbc_ic-method

Provide an update of a dmbc_ic class instance.
plot,dmbc_fit,ANY-method

Provide a graphical summary of a dmbc_fit class instance.
summary,dmbc_fit-method

Provide a summary of a dmbc_fit class instance.
bmds

Bayesian multidimensional scaling (BMDS) using Markov Chain Monte Carlo (MCMC).
clusters,dmbc_config-method

Extract the final cluster memberships from a dmbc_config class instance.
bmds_get_x_mode

Posterior mode latent configuration in Bayesian multidimensional scaling (BMDS).
animals

List of binary dissimilarity matrices among 18 animals.
comp_ssr

Sum of squared residuals (SSR) from the observed distances and the given latent configuration.
adjust_x

Adjustment of the center and orientation of a latent configuration.
dmbc

Estimation of a DMBC model.
check_list_na

Auxiliary function to recursively check NAs in a list.
dmbc_IC

Model selection of DMBC models.