| BayesHMM-package | BayesHMM: Full Bayesian Inference for Hidden Markov Models |
| Bernoulli | Bernoulli mass (univariate, discrete, bounded space) |
| Beta | Beta density (univariate, continuous, bounded space) |
| Binomial | Binomial mass (univariate, discrete, bounded space) |
| block_data | Write the data block of the Stan code. |
| block_data.Density | Write the data block of the Stan code. |
| block_data.DiscreteDensity | Write the data block of the Stan code. |
| block_data.RegBernoulliLogit | Write the data block of the Stan code. |
| block_data.RegBinomialLogit | Write the data block of the Stan code. |
| block_data.RegBinomialProbit | Write the data block of the Stan code. |
| block_data.RegCategoricalSoftmax | Write the data block of the Stan code. |
| block_data.RegGaussian | Write the data block of the Stan code. |
| block_data.Specification | Write the data block of the Stan code. |
| block_functions | Write the function block of the Stan code. |
| block_functions.Specification | Write the function block of the Stan code. |
| block_generated | Write the generated quantities block of the Stan code. |
| block_generated.Specification | Write the generated quantities block of the Stan code. |
| block_parameters | Write the parameters block of the Stan code. |
| block_parameters.Specification | Write the parameters block of the Stan code. |
| block_target | Write the model block of the Stan code. |
| block_target.Specification | Write the model block of the Stan code. |
| block_tdata | Write the transformed data block of the Stan code. |
| block_tdata.Specification | Write the transformed data block of the Stan code. |
| block_tparameters | Write the transformed parameters block of the Stan code. |
| block_tparameters.Specification | Write the transformed parameters block of the Stan code. |
| browse_model | Load the underlying Stan code into an IDE or browser. |
| browse_model.Optimization | Load the underlying Stan code into an IDE or browser. |
| browse_model.Specification | Load the underlying Stan code into an IDE or browser. |
| browse_model.stanfit | Load the underlying Stan code into an IDE or browser. |
| browse_model.stanmodel | Load the underlying Stan code into an IDE or browser. |
| Categorical | Categorical mass (univariate, discrete, bounded space) |
| Cauchy | Cauchy density (univariate, continuous, unbounded space) |
| CholeskyLKJCor | Cholesky LKJ Correlation density (multivariate, continuous,... |
| classify_alpha | Classify observations based on filtered probabilities. |
| classify_alpha.Optimization | Classify observations based on filtered probabilities. |
| classify_alpha.stanfit | Classify observations based on filtered probabilities. |
| classify_gamma | Classify observations based on smoothed probabilities. |
| classify_gamma.Optimization | Classify observations based on smoothed probabilities. |
| classify_gamma.stanfit | Classify observations based on smoothed probabilities. |
| classify_quantity | Classify observations based on latent state probabilities. |
| classify_zstar | Assign the hidden states to the most likely path (_zstar_). |
| classify_zstar.Optimization | Assign the hidden states to the most likely path (_zstar_). |
| classify_zstar.stanfit | Assign the hidden states to the most likely path (_zstar_). |
| compile | Compile a specified model. |
| compile.Specification | Compile a specified model. |
| constants | Write the Stan code lines related with Density constants. |
| constants.Binomial | Write the Stan code lines related with Density constants. |
| constants.Categorical | Write the Stan code lines related with Density constants. |
| constants.Density | Write the Stan code lines related with Density constants. |
| constants.Multinomial | Write the Stan code lines related with Density constants. |
| constants.RegBinomialLogit | Write the Stan code lines related with Density constants. |
| constants.RegBinomialProbit | Write the Stan code lines related with Density constants. |
| constants.RegCategoricalSoftmax | Write the Stan code lines related with Density constants. |
| Density | Create a representation of a probability mass or density... |
| Dirichlet | Dirichlet density (multivariate, continuous, unbounded space) |
| DiscreteDensity | Create a representation of a probability mass or density... |
| draw_samples | Draw samples from a specification. |
| draw_samples.Optimization | Draw samples from a specification. |
| draw_samples.Specification | Draw samples from a specification. |
| draw_samples.stanfit | Draw samples from a specification. |
| draw_samples.stanmodel | Draw samples from a specification. |
| explain | Create a user-friendly text describing the model. |
| explain_density | Explain a Density object in human readable format. |
| explain_density.Density | Explain a Density object in human readable format. |
| explain_density.DensityList | Explain a Density object in human readable format. |
| explain_density.InitialFixed | Explain a Density object in human readable format. |
| explain_density.InitialSoftmax | Explain a Density object in human readable format. |
| explain_density.TransitionFixed | Explain a Density object in human readable format. |
| explain_density.TransitionSoftmax | Explain a Density object in human readable format. |
| explain_initial | Create an outline of the initial distribution model. |
| explain_initial.Specification | Create an outline of the initial distribution model. |
| explain_observation | Create an outline of the observation model. |
| explain_observation.Specification | Create an outline of the observation model. |
| explain.Specification | Create a user-friendly text describing the model. |
| explain_transition | Create an outline of the transition model. |
| explain_transition.Specification | Create an outline of the transition model. |
| Exponential | Exponential density (univariate, continuous, bounded space) |
| extract | Extract quantities from a model fitted with BayesHMM. |
| extract_alpha | Extract the estimates of the filtered probability (alpha). |
| extract_best | Return the optimization object for the run with the hightest... |
| extract_data | Extract the dataset used to fit the model. |
| extract_date | Extract the date when the model was run. |
| extract_date.Optimization | Extract the date when the model was run. |
| extract_date.stanfit | Extract the date when the model was run. |
| extract_diagnostics | Extract MCMC convergence and posterior predictive... |
| extract_diagnostics.stanfit | Extract MCMC convergence and posterior predictive... |
| extract_filename | Extract the path to file with the underlying Stan code. |
| extract_gamma | Extract the estimates of the smoothed probability (gamma). |
| extract_grid | Extract summary results from the optimization procedure. |
| extract_K | Extract the number of hidden states _K_. |
| extract_model | Extract the underlying Stan code. |
| extract_n_chains | Extract the number of chains _M_. |
| extract_n_chains.stanfit | Extract the number of chains _M_. |
| extract_n_iterations | Extract the number of total iterations. |
| extract_n_iterations.stanfit | Extract the number of total iterations. |
| extract_n_thin | Extract the thinning periodicity. |
| extract_n_thin.stanfit | Extract the thinning periodicity. |
| extract_n_warmup | Extract the number of warmup iterations. |
| extract_n_warmup.stanfit | Extract the number of warmup iterations. |
| extract_obs_parameters | Extract the estimates of the observation model parameters. |
| extract_parameter_names | Extract the names of all the model parameters in the fit... |
| extract_parameter_names.Optimization | Extract the names of all the model parameters in the fit... |
| extract_parameter_names.stanfit | Extract the names of all the model parameters in the fit... |
| extract_parameters | Extract the estimates of the model parameters (observation,... |
| extract_quantity | Extract estimated quantities from fit objects. |
| extract_quantity.Optimization | Extract estimated quantities from fit objects. |
| extract_quantity.stanfit | Extract estimated quantities from fit objects. |
| extract_R | Extract the dimension of the observation vector _R_. |
| extract_sample_size | Extract the number of iterations kept after warmup. |
| extract_sample_size.stanfit | Extract the number of iterations kept after warmup. |
| extract_seed | Extract the seed used to fit the model. |
| extract_seed.Optimization | Extract the seed used to fit the model. |
| extract_seed.stanfit | Extract the seed used to fit the model. |
| extract_spec | Extract the 'Specification' object used to object the model. |
| extract_stanmodel | Extract the stanmodel object of the fitted object. |
| extract_stanmodel.Optimization | Extract the stanmodel object of the fitted object. |
| extract_stanmodel.stanfit | Extract the stanmodel object of the fitted object. |
| extract_stanmodel.stanmodel | Extract the stanmodel object of the fitted object. |
| extract_T | Extract the length of the time series _T_. |
| extract_time | Extract the time elapsed when fitting the model. |
| extract_time.Optimization | Extract the time elapsed when fitting the model. |
| extract_time.stanfit | Extract the time elapsed when fitting the model. |
| extract_y | Extract the obsevation matrix used to fit the model _y_ |
| extract_ypred | Extract the sample of the observation variable drawn from the... |
| extract_ysim | Extract the simulated sample of the observation variable... |
| extract_zpred | Extract the sample of the hidden state path drawn from the... |
| extract_zsim | Extract the simulated sample of the state variable (zsim). |
| extract_zstar | Extract the estimates of the most likely hidden state... |
| fit | Fit a model by MCMC |
| fit.Optimization | Fit a model by MCMC |
| fit.Specification | Fit a model by MCMC |
| fit.stanfit | Fit a model by MCMC |
| fit.stanmodel | Fit a model by MCMC |
| fixedParameters | Write the Stan code lines related with Density fixed... |
| fixedParameters.Bernoulli | Write the Stan code lines related with Density fixed... |
| fixedParameters.Beta | Write the Stan code lines related with Density fixed... |
| fixedParameters.Binomial | Write the Stan code lines related with Density fixed... |
| fixedParameters.Categorical | Write the Stan code lines related with Density fixed... |
| fixedParameters.Cauchy | Write the Stan code lines related with Density fixed... |
| fixedParameters.Dirichlet | Write the Stan code lines related with Density fixed... |
| fixedParameters.Exponential | Write the Stan code lines related with Density fixed... |
| fixedParameters.GammaDensity | Write the Stan code lines related with Density fixed... |
| fixedParameters.Gaussian | Write the Stan code lines related with Density fixed... |
| fixedParameters.InitialFixed | Write the Stan code lines related with Density fixed... |
| fixedParameters.InitialSoftmax | Write the Stan code lines related with Density fixed... |
| fixedParameters.Multinomial | Write the Stan code lines related with Density fixed... |
| fixedParameters.MVGaussian | Write the Stan code lines related with Density fixed... |
| fixedParameters.MVGaussianCholeskyCor | Write the Stan code lines related with Density fixed... |
| fixedParameters.MVStudent | Write the Stan code lines related with Density fixed... |
| fixedParameters.NegativeBinomial | Write the Stan code lines related with Density fixed... |
| fixedParameters.NegativeBinomialLocation | Write the Stan code lines related with Density fixed... |
| fixedParameters.Poisson | Write the Stan code lines related with Density fixed... |
| fixedParameters.PriorOnlyDensity | Write the Stan code lines related with Density fixed... |
| fixedParameters.RegBernoulliLogit | Write the Stan code lines related with Density fixed... |
| fixedParameters.RegBinomialLogit | Write the Stan code lines related with Density fixed... |
| fixedParameters.RegBinomialProbit | Write the Stan code lines related with Density fixed... |
| fixedParameters.RegCategoricalSoftmax | Write the Stan code lines related with Density fixed... |
| fixedParameters.RegGaussian | Write the Stan code lines related with Density fixed... |
| fixedParameters.Student | Write the Stan code lines related with Density fixed... |
| fixedParameters.TransitionFixed | Write the Stan code lines related with Density fixed... |
| fixedParameters.TransitionSoftmax | Write the Stan code lines related with Density fixed... |
| freeParameters | Write the Stan code lines related with Density free... |
| freeParameters.Bernoulli | Write the Stan code lines related with Density free... |
| freeParameters.Beta | Write the Stan code lines related with Density free... |
| freeParameters.Binomial | Write the Stan code lines related with Density free... |
| freeParameters.Categorical | Write the Stan code lines related with Density free... |
| freeParameters.Cauchy | Write the Stan code lines related with Density free... |
| freeParameters.Dirichlet | Write the Stan code lines related with Density free... |
| freeParameters.Exponential | Write the Stan code lines related with Density free... |
| freeParameters.GammaDensity | Write the Stan code lines related with Density free... |
| freeParameters.Gaussian | Write the Stan code lines related with Density free... |
| freeParameters.InitialFixed | Write the Stan code lines related with Density free... |
| freeParameters.InitialSoftmax | Write the Stan code lines related with Density free... |
| freeParameters.Multinomial | Write the Stan code lines related with Density free... |
| freeParameters.MVGaussian | Write the Stan code lines related with Density free... |
| freeParameters.MVGaussianCholeskyCor | Write the Stan code lines related with Density free... |
| freeParameters.MVStudent | Write the Stan code lines related with Density free... |
| freeParameters.NegativeBinomial | Write the Stan code lines related with Density free... |
| freeParameters.NegativeBinomialLocation | Write the Stan code lines related with Density free... |
| freeParameters.Poisson | Write the Stan code lines related with Density free... |
| freeParameters.PriorOnlyDensity | Write the Stan code lines related with Density free... |
| freeParameters.RegBernoulliLogit | Write the Stan code lines related with Density free... |
| freeParameters.RegBinomialLogit | Write the Stan code lines related with Density free... |
| freeParameters.RegBinomialProbit | Write the Stan code lines related with Density free... |
| freeParameters.RegCategoricalSoftmax | Write the Stan code lines related with Density free... |
| freeParameters.RegGaussian | Write the Stan code lines related with Density free... |
| freeParameters.Student | Write the Stan code lines related with Density free... |
| freeParameters.TransitionFixed | Write the Stan code lines related with Density free... |
| freeParameters.TransitionSoftmax | Write the Stan code lines related with Density free... |
| GammaDensity | Gamma density (univariate, continuous, bounded space) |
| Gaussian | Gaussian density (univariate, continuous, unbounded space) |
| generated | Write the Stan code lines related with Density generated... |
| generated.Bernoulli | Write the Stan code lines related with Density generated... |
| generated.Beta | Write the Stan code lines related with Density generated... |
| generated.Binomial | Write the Stan code lines related with Density generated... |
| generated.Categorical | Write the Stan code lines related with Density generated... |
| generated.Cauchy | Write the Stan code lines related with Density generated... |
| generated.Dirichlet | Write the Stan code lines related with Density generated... |
| generated.Exponential | Write the Stan code lines related with Density generated... |
| generated.GammaDensity | Write the Stan code lines related with Density generated... |
| generated.Gaussian | Write the Stan code lines related with Density generated... |
| generated.Multinomial | Write the Stan code lines related with Density generated... |
| generated.MVGaussian | Write the Stan code lines related with Density generated... |
| generated.MVGaussianCholeskyCor | Write the Stan code lines related with Density generated... |
| generated.MVStudent | Write the Stan code lines related with Density generated... |
| generated.NegativeBinomial | Write the Stan code lines related with Density generated... |
| generated.NegativeBinomialLocation | Write the Stan code lines related with Density generated... |
| generated.Poisson | Write the Stan code lines related with Density generated... |
| generated.PriorOnlyDensity | Write the Stan code lines related with Density generated... |
| generated.RegBernoulliLogit | Write the Stan code lines related with Density generated... |
| generated.RegBinomialLogit | Write the Stan code lines related with Density generated... |
| generated.RegBinomialProbit | Write the Stan code lines related with Density generated... |
| generated.RegCategoricalSoftmax | Write the Stan code lines related with Density generated... |
| generated.RegGaussian | Write the Stan code lines related with Density generated... |
| generated.Student | Write the Stan code lines related with Density generated... |
| get_current_theme | Return the current theme. |
| get_default_theme | Return the default theme. |
| getFixedParameters | Return the names of the fixed parameters in the Density... |
| getFixedParameters.Density | Return the names of the fixed parameters in the Density... |
| getFreeParameters | Return the names of the free parameters in the Density... |
| getFreeParameters.Density | Return the names of the free parameters in the Density... |
| getFreeParameters.PriorOnlyDensity | Return the names of the free parameters in the Density... |
| getParameterNames | Return the names of both free and fixed parameters in the... |
| getParameterNames.Bernoulli | Return the names of both free and fixed parameters in the... |
| getParameterNames.Beta | Return the names of both free and fixed parameters in the... |
| getParameterNames.Binomial | Return the names of both free and fixed parameters in the... |
| getParameterNames.Categorical | Return the names of both free and fixed parameters in the... |
| getParameterNames.Cauchy | Return the names of both free and fixed parameters in the... |
| getParameterNames.Density | Return the names of both free and fixed parameters in the... |
| getParameterNames.Dirichlet | Return the names of both free and fixed parameters in the... |
| getParameterNames.Exponential | Return the names of both free and fixed parameters in the... |
| getParameterNames.GammaDensity | Return the names of both free and fixed parameters in the... |
| getParameterNames.Gaussian | Return the names of both free and fixed parameters in the... |
| getParameterNames.InitialFixed | Return the names of both free and fixed parameters in the... |
| getParameterNames.InitialSoftmax | Return the names of both free and fixed parameters in the... |
| getParameterNames.Multinomial | Return the names of both free and fixed parameters in the... |
| getParameterNames.MVGaussian | Return the names of both free and fixed parameters in the... |
| getParameterNames.MVGaussianCholeskyCor | Return the names of both free and fixed parameters in the... |
| getParameterNames.MVStudent | Return the names of both free and fixed parameters in the... |
| getParameterNames.NegativeBinomial | Return the names of both free and fixed parameters in the... |
| getParameterNames.NegativeBinomialLocation | Return the names of both free and fixed parameters in the... |
| getParameterNames.Poisson | Return the names of both free and fixed parameters in the... |
| getParameterNames.PriorOnlyDensity | Return the names of the free parameters in the Density... |
| getParameterNames.RegBernoulliLogit | Return the names of both free and fixed parameters in the... |
| getParameterNames.RegBinomialLogit | Return the names of both free and fixed parameters in the... |
| getParameterNames.RegBinomialProbit | Return the names of both free and fixed parameters in the... |
| getParameterNames.RegCategoricalSoftmax | Return the names of both free and fixed parameters in the... |
| getParameterNames.RegGaussian | Return the names of both free and fixed parameters in the... |
| getParameterNames.Student | Return the names of both free and fixed parameters in the... |
| getParameterNames.TransitionFixed | Return the names of both free and fixed parameters in the... |
| getParameterNames.TransitionSoftmax | Return the names of both free and fixed parameters in the... |
| get_plot_theme | Return the current theme for visualizations. |
| get_print_settings | Return the current theme for text printouts. |
| hmm | Specify a Hidden Markov Model. |
| ImproperUniform | Improper uniform prior density (prior only) |
| InitialFixed | Fixed initial probability vector |
| InitialSoftmax | Softmax initial probability density |
| InverseWishart | Inverse Wishart density (multivariate, continuous, bounded... |
| is.Density | Check if it is a 'Density' object. |
| is.DensityList | Check if it is a 'DensityList' object. |
| is.discrete | Check if it is a Density object for discrete random... |
| is.discrete.Density | Check if it is a Density object for discrete random... |
| is.discrete.DensityList | Check if it is a Density object for discrete random... |
| is.discrete.DiscreteDensity | Check if it is a Density object for discrete random... |
| is.discrete.Specification | Check if it is a Density object for discrete random... |
| is.equal | Check if it is a Density object for a parameter with equal... |
| is.equal.Density | Check if it is a Density object for a parameter with equal... |
| is.FixedInitial | Check if it is a fixed initial probability object. |
| is.FixedInitial.Density | Check if it is a fixed initial probability object. |
| is.FixedInitial.InitialFixed | Check if it is a fixed initial probability object. |
| is.FixedInitial.Specification | Check if it is a fixed initial probability object. |
| is.FixedTransition | Check if it is a fixed transition probability object. |
| is.FixedTransition.Density | Check if it is a fixed transition probability object. |
| is.FixedTransition.Specification | Check if it is a fixed transition probability object. |
| is.FixedTransition.TransitionFixed | Check if it is a fixed transition probability object. |
| is.link | Check if it is a Density object for the transition model. |
| is.link.Density | Check if it is a Density object for the transition model. |
| is.link.LinkDensity | Check if it is a Density object for the transition model. |
| is.multivariate | Check if it is a Density object for multivariate random... |
| is.multivariate.Density | Check if it is a Density object for multivariate random... |
| is.multivariate.DensityList | Check if it is a Density object for multivariate random... |
| is.multivariate.MultivariateDensity | Check if it is a Density object for multivariate random... |
| is.multivariate.Specification | Check if it is a Density object for multivariate random... |
| is.ordered | Check if it is a Density object for an ordered set of... |
| is.ordered.Density | Check if it is a Density object for an ordered set of... |
| is.Specification | Check if it is a 'Specification' object. |
| is.stanfit | Check if it is an object created by 'draw_samples'. |
| is.stanoptim | Verify that the object was created by 'optimizing'. |
| is.TVInitial | Check if it is a time-varying initial distribution object. |
| is.TVInitial.Density | Check if it is a time-varying initial distribution object. |
| is.TVInitial.InitialSoftmax | Check if it is a time-varying initial distribution object. |
| is.TVInitial.Specification | Check if it is a time-varying initial distribution object. |
| is.TVTransition | Check if it is a time-varying transition probability object. |
| is.TVTransition.Density | Check if it is a time-varying transition probability object. |
| is.TVTransition.Specification | Check if it is a time-varying transition probability object. |
| is.TVTransition.TransitionSoftmax | Check if it is a time-varying transition probability object. |
| link | Write the Stan code lines related with Density link function. |
| link.Density | Write the Stan code lines related with Density link function. |
| LinkDensity | Create a representation of a link function that may be used... |
| link.InitialFixed | Write the Stan code lines related with Density link function. |
| link.InitialSoftmax | Write the Stan code lines related with Density link function. |
| link.TransitionFixed | Write the Stan code lines related with Density link function. |
| link.TransitionSoftmax | Write the Stan code lines related with Density link function. |
| load_theme | Loads a theme into the R session. |
| logLike | Write the Stan code lines related with Density log... |
| logLike.Bernoulli | Write the Stan code lines related with Density log... |
| logLike.Beta | Write the Stan code lines related with Density log... |
| logLike.Binomial | Write the Stan code lines related with Density log... |
| logLike.Categorical | Write the Stan code lines related with Density log... |
| logLike.Cauchy | Write the Stan code lines related with Density log... |
| logLike.Dirichlet | Write the Stan code lines related with Density log... |
| logLike.Exponential | Write the Stan code lines related with Density log... |
| logLike.GammaDensity | Write the Stan code lines related with Density log... |
| logLike.Gaussian | Write the Stan code lines related with Density log... |
| logLike.Multinomial | Write the Stan code lines related with Density log... |
| logLike.MVGaussian | Write the Stan code lines related with Density log... |
| logLike.MVGaussianCholeskyCor | Write the Stan code lines related with Density log... |
| logLike.MVStudent | Write the Stan code lines related with Density log... |
| logLike.NegativeBinomial | Write the Stan code lines related with Density log... |
| logLike.NegativeBinomialLocation | Write the Stan code lines related with Density log... |
| logLike.Poisson | Write the Stan code lines related with Density log... |
| logLike.PriorOnlyDensity | Write the Stan code lines related with Density log... |
| logLike.RegBernoulliLogit | Write the Stan code lines related with Density log... |
| logLike.RegBinomialLogit | Write the Stan code lines related with Density log... |
| logLike.RegBinomialProbit | Write the Stan code lines related with Density log... |
| logLike.RegCategoricalSoftmax | Write the Stan code lines related with Density log... |
| logLike.RegGaussian | Write the Stan code lines related with Density log... |
| logLike.Student | Write the Stan code lines related with Density log... |
| make_text_header | Make a character string with a header. |
| make_text_line | Make a character string with a line (horizontal rule). |
| make_text_subheader | Make a character string with a subheader. |
| match_parameter_names | Return the name of the parameters matching the pattern. |
| mixture | Specify a mixture model. |
| modify_theme_entry | Modifies an entry in the current theme. |
| Multinomial | Multinomial mass (multivariate, discrete, bounded space) |
| MultivariateDensity | Create a representation of a probability mass or density... |
| MultivariateDiscreteDensity | Create a representation of a probability mass or density... |
| MVGaussian | Multivariate Gaussian density (Multivariate, continuous,... |
| MVGaussianCholeskyCor | Multivariate Gaussian density with Cholesky decomposition of... |
| MVStudent | Multivariate Student density (Multivariate, continuous,... |
| NegativeBinomial | Negative Binomial mass (univariate, discrete, bounded space) |
| NegativeBinomialLocation | Negative Binomial mass in the mean value parametrization... |
| noLogLike | Write the Stan code lines related with Density no log... |
| noLogLike.Density | Write the Stan code lines related with Density no log... |
| optimizing | Fit a model by MAP. |
| optimizing_all | Run several instances of the optimization algorithm. |
| optimizing_best | Run several instances of the optimization algorithm. |
| optimizing.Optimization | Fit a model by MAP. |
| optimizing_run | Run one instance of the |
| optimizing.Specification | Fit a model by MAP. |
| optimizing.stanfit | Fit a model by MAP. |
| optimizing.stanmodel | Fit a model by MAP. |
| parameters | Write the Stan code lines related with Density parameters. |
| plot_ppredictive | Plot samples drawn from the posterior predictive density. |
| plot_ppredictive.stanfit | Plot samples drawn from the posterior predictive density. |
| plot_series | Plot the observation series along with many other... |
| plot_state_probability | Plot the estimated hidden path along with many other... |
| plus-.Density | Append two Density objects. |
| Poisson | Poisson mass (univariate, discrete, bounded space) |
| posterior_intervals | Return a function that computes the posterior intervals. |
| posterior_mode | Return the posterior mode of a vector. |
| print.Density | Print a description of a Density object in a human friendly... |
| print.Optimization | Prints the result of the model in a human friendly format. |
| print.Specification | Print a description of a Specification in a human friendly... |
| print.stanfit | Print the result of the model in a human friendly format. |
| prior | Write the Stan code lines related with Density priors. |
| prior.Bernoulli | Write the Stan code lines related with Density priors. |
| prior.Beta | Write the Stan code lines related with Density priors. |
| prior.Binomial | Write the Stan code lines related with Density priors. |
| prior.Categorical | Write the Stan code lines related with Density priors. |
| prior.Cauchy | Write the Stan code lines related with Density priors. |
| prior.CholeskyLKJCor | Write the Stan code lines related with Density priors. |
| prior.Dirichlet | Write the Stan code lines related with Density priors. |
| prior.Exponential | Write the Stan code lines related with Density priors. |
| prior.GammaDensity | Write the Stan code lines related with Density priors. |
| prior.Gaussian | Write the Stan code lines related with Density priors. |
| prior.ImproperUniform | Write the Stan code lines related with Density priors. |
| prior.InitialFixed | Write the Stan code lines related with Density priors. |
| prior.InitialSoftmax | Write the Stan code lines related with Density priors. |
| prior.InverseWishart | Write the Stan code lines related with Density priors. |
| prior.Multinomial | Write the Stan code lines related with Density priors. |
| prior.MVGaussian | Write the Stan code lines related with Density priors. |
| prior.MVGaussianCholeskyCor | Write the Stan code lines related with Density priors. |
| prior.MVStudent | Write the Stan code lines related with Density priors. |
| prior.NegativeBinomial | Write the Stan code lines related with Density priors. |
| prior.NegativeBinomialLocation | Write the Stan code lines related with Density priors. |
| PriorOnlyDensity | Create a representation of a probability mass or density... |
| PriorOnlyMultivariateDensity | Create a representation of a probability mass or density... |
| prior.Poisson | Write the Stan code lines related with Density priors. |
| prior.RegBernoulliLogit | Write the Stan code lines related with Density priors. |
| prior.RegBinomialLogit | Write the Stan code lines related with Density priors. |
| prior.RegBinomialProbit | Write the Stan code lines related with Density priors. |
| prior.RegCategoricalSoftmax | Write the Stan code lines related with Density priors. |
| prior.RegGaussian | Write the Stan code lines related with Density priors. |
| prior.Student | Write the Stan code lines related with Density priors. |
| prior.TransitionFixed | Write the Stan code lines related with Density priors. |
| prior.TransitionSoftmax | Write the Stan code lines related with Density priors. |
| prior.Wishart | Write the Stan code lines related with Density priors. |
| RegBernoulliLogit | Bernoulli regression with logistic link density (univariate,... |
| RegBinomialLogit | Binomial regression with logistic link density (univariate,... |
| RegBinomialProbit | Binomial regression with probit link density (univariate,... |
| RegCategoricalSoftmax | Categorical regression with softmax link density (univariate,... |
| RegGaussian | Regression with Gaussian link density (univariate,... |
| run | Run a Markov-chain Monte Carlo algorithm to sample from the... |
| run.Specification | Run a Markov-chain Monte Carlo algorithm to sample from the... |
| select_all_parameters | Return the name of all model parameters. |
| select_initial_parameters | Return the name of the initial model parameters. |
| select_obs_parameters | Return the name of the observation model parameters. |
| select_parameters | Return the name of the model parameters. |
| select_transition_parameters | Return the name of the transition model parameters. |
| sim | Simulate data from the prior predictive density. |
| sim.Optimization | Simulate data from the prior predictive density. |
| sim.Specification | Simulate data from the prior predictive density. |
| sim.stanfit | Simulate data from the prior predictive density. |
| sim.stanmodel | Simulate data from the prior predictive density. |
| specify | Specify a model. |
| string_simplify | Remove non-alphabetic characters and modify to lowercase. |
| Student | Student density (univariate, continuous, unbounded space) |
| theme | Theme for BayesHMM visualizations and printouts |
| TransitionFixed | Fixed transition probability matrix |
| TransitionSoftmax | Softmax transition density |
| validate_calibration | Validate a model via a procedure based on simulated data. |
| Wishart | Wishart density (multivariate, continuous, bounded space,... |
| write_chunks | Write Stan code chunks to disk |
| write_chunks.Specification | Write Stan code chunks to disk |
| write_model | Write a ready-to-compile Stan file to disk |
| write_model.Specification | Write a ready-to-compile Stan file to disk |
