Extractor Functions for bgms Objects
extract_arguments(bgms_object)# S3 method for bgms
extract_arguments(bgms_object)
# S3 method for bgmCompare
extract_arguments(bgms_object)
extract_indicators(bgms_object)
# S3 method for bgms
extract_indicators(bgms_object)
# S3 method for bgmCompare
extract_indicators(bgms_object)
extract_posterior_inclusion_probabilities(bgms_object)
# S3 method for bgms
extract_posterior_inclusion_probabilities(bgms_object)
extract_sbm(bgms_object)
# S3 method for bgms
extract_sbm(bgms_object)
# S3 method for bgmCompare
extract_posterior_inclusion_probabilities(bgms_object)
extract_indicator_priors(bgms_object)
# S3 method for bgms
extract_indicator_priors(bgms_object)
# S3 method for bgmCompare
extract_indicator_priors(bgms_object)
extract_pairwise_interactions(bgms_object)
# S3 method for bgms
extract_pairwise_interactions(bgms_object)
# S3 method for bgmCompare
extract_pairwise_interactions(bgms_object)
extract_category_thresholds(bgms_object)
# S3 method for bgms
extract_category_thresholds(bgms_object)
# S3 method for bgmCompare
extract_category_thresholds(bgms_object)
extract_group_params(bgms_object)
# S3 method for bgmCompare
extract_group_params(bgms_object)
extract_edge_indicators(bgms_object)
extract_pairwise_thresholds(bgms_object)
extract_rhat(bgms_object)
# S3 method for bgms
extract_rhat(bgms_object)
# S3 method for bgmCompare
extract_rhat(bgms_object)
extract_ess(bgms_object)
# S3 method for bgms
extract_ess(bgms_object)
# S3 method for bgmCompare
extract_ess(bgms_object)
An object of class `bgms` or `bgmCompare`.
- `extract_arguments()` – Extract model arguments - `extract_indicators()` – Get sampled edge indicators - `extract_posterior_inclusion_probabilities()` – Posterior edge inclusion probabilities - `extract_pairwise_interactions()` – Posterior mean of pairwise interactions - `extract_category_thresholds()` – Posterior mean of category thresholds - `extract_indicator_priors()` – Prior structure used for edge indicators - `extract_sbm()` – Extract stochastic block model parameters (if applicable) - `extract_rhat()` – Extract R-hat convergence diagnostics - `extract_ess()` – Extract effective sample size estimates
These functions extract various components from objects returned by the `bgm()` function, such as edge indicators, posterior inclusion probabilities, and parameter summaries.
Internally, indicator samples were stored in `$gamma` (pre-0.1.4, now defunct) and `$indicator` (0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**, they are stored in `$raw_samples$indicator`.
For bgmCompare objects, indicator samples were stored in
$pairwise_difference_indicator and $main_difference_indicator
(0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**, they are
stored in $raw_samples$indicator.
Posterior inclusion probabilities are computed from edge indicators.
Internally, indicator samples were stored in `$gamma` (pre-0.1.4, now defunct) and `$indicator` (0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**, they are stored in `$raw_samples$indicator`.
Pairwise interactions were previously stored in `$pairwise_effects` (pre-0.1.4, now defunct) and `$posterior_mean_pairwise` (0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**, they are stored in `$raw_samples$pairwise` (raw samples) and `$posterior_summary_pairwise` (summaries).
For bgmCompare objects, pairwise interactions were stored in
$interactions (0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**,
they are stored in $raw_samples$pairwise.
Category thresholds were previously stored in `$main_effects` (pre-0.1.4, now defunct) and `$posterior_mean_main` (0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**, they are stored in `$posterior_summary_main`.
For bgmCompare objects, category thresholds were stored in
$thresholds (0.1.4–0.1.5, deprecated). As of **bgms 0.1.6.0**,
they are stored in $raw_samples$main.