# Bayesian Analysis of Graphical Models

## Documentation for package ‘bgms’ version 0.2.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

$.bgmCompare | Access elements of a bgmCompare object
$.bgms | Access elements of a bgms object
ADHD | ADHD Symptom Checklist for Children Aged 6-8 Years
bernoulli_prior | Bernoulli Prior for Inclusion Indicators
beta_bernoulli_prior | Beta-Bernoulli Prior for Inclusion Indicators
beta_prime_prior | Beta-Prime Prior for Model Parameters
bgm | Bayesian Estimation or Edge Selection for Markov Random Fields
bgmCompare | Bayesian Estimation and Variable Selection for Group Differences in Markov Random Fields
Boredom | Short Boredom Proneness Scale Responses
calibration_check | Calibration Check
cauchy_prior | Cauchy Prior for Model Parameters
coef.bgmCompare | Extract Coefficients from a bgmCompare Object
coef.bgms | Extract Coefficients from a bgms Object
exponential_prior | Exponential Prior for Scale Parameters
extract_arguments | Extract Model Arguments
extract_category_thresholds | Extract Category Threshold Estimates
extract_centrality | Extract Posterior Centrality
extract_ess | Extract Effective Sample Size
extract_group_params | Extract Group-Specific Parameters
extract_inclusion_bf | Extract Rao-Blackwellized Inclusion Bayes Factors
extract_indicators | Extract Indicator Samples
extract_indicator_priors | Extract Indicator Prior Structure
extract_log_odds | Extract Posterior Mean Log-Odds (Pairwise Interactions)
extract_main_effects | Extract Main Effect Estimates
extract_pairwise_interactions | Extract Pairwise Interaction Samples
extract_partial_correlations | Extract Posterior Mean Partial Correlations
extract_posterior_inclusion_probabilities | Extract Posterior Inclusion Probabilities
extract_precision | Extract Posterior Mean Precision Matrix
extract_prior_inclusion_probabilities | Extract Prior Inclusion Probabilities
extract_rhat | Extract R-hat Convergence Diagnostics
extract_sbm | Extract Stochastic Block Model Summaries
gamma_prior | Gamma Prior for Scale Parameters
normal_prior | Normal Prior for Model Parameters
plot.bgmCompare | Plot a Fitted bgmCompare Model
plot.bgms | Plot a Fitted bgms Model
plot.bgms_calibration | Plot a Calibration Check
plot.bgms_centrality | Plot Posterior Centrality
plot.bgms_prior_sensitivity | Plot a Prior Sensitivity Check
plot_edge_posterior | Plot the Posterior of One Edge Weight
predict.bgmCompare | Predict Conditional Probabilities from a Fitted bgmCompare Model
predict.bgms | Predict Conditional Probabilities from a Fitted bgms Model
print.bgmCompare | Print method for 'bgmCompare' objects
print.bgms | Print method for 'bgms' objects
print.bgms_calibration | Print a Calibration Check
print.bgms_prior_sensitivity | Print a Prior Sensitivity Check
print.bgms_verdicts | Print Edge Verdicts
prior_sensitivity_check | Prior Sensitivity of Inclusion Verdicts
sample_ggm_prior | Sample from the GGM (Partial-Association) Prior
sample_graph_prior | Sample from the Graph Prior
sample_sbm_prior | Sample from the Stochastic-Block Edge-Prior Hyperprior
sbm_prior | Stochastic Block Model Prior for Inclusion Indicators
simulate.bgmCompare | Simulate Data from a Fitted bgmCompare Model
simulate.bgms | Simulate Data from a Fitted bgms Model
simulate_mrf | Simulate Observations from a Markov Random Field
summarize_zratio_gauge | Summarize the Hierarchical Prior Trust Gauge
summary.bgmCompare | Summary method for 'bgmCompare' objects
summary.bgms | Summary method for 'bgms' objects
summary.bgms_centrality | Summarize Posterior Centrality
verdicts | Edge Verdicts and Their Monte Carlo Fragility
Wenchuan | PTSD Symptoms in Wenchuan Earthquake Survivors Who Lost a Child
[[.bgmCompare | Access elements of a bgmCompare object
[[.bgms | Access elements of a bgms object