# Bayesian Structure Learning in Graphical Models using Birth-Death MCMC

## Documentation for package ‘BDgraph’ version 2.72

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

## Help Pages

BDgraph-package | Bayesian Structure Learning in Graphical Models
adj2link | Extract links from an adjacency matrix
auc | Compute the area under the ROC curve
BDgraph | Bayesian Structure Learning in Graphical Models
bdgraph | Search algorithm in graphical models
bdgraph.dw | Search algorithm for Gaussian copula graphical models for count data
bdgraph.mpl | Search algorithm in graphical models using marginal pseudo-likehlihood
bdgraph.npn | Nonparametric transfer
bdgraph.sim | Graph data simulation
bdw.reg | Bayesian estimation of (zero-inflated) Discrete Weibull regression
bf | Bayes factor for two graphs
calc_joint_dist | Bayesian Structure Learning in Graphical Models
compare | Graph structure comparison
compute_measures | Bayesian Structure Learning in Graphical Models
compute_tp_fp | Bayesian Structure Learning in Graphical Models
conf.mat | Confusion Matrix
conf.mat.plot | Plot Confusion Matrix
covariance | Estimated covariance matrix
ddweibull | The Discrete Weibull Distribution (Type 1)
ddweibull_reg | Bayesian Structure Learning in Graphical Models
detect_cores | Bayesian Structure Learning in Graphical Models
geneExpression | Human gene expression dataset
generate_clique_factors | Bayesian Structure Learning in Graphical Models
get_bounds_dw | Bayesian Structure Learning in Graphical Models
get_cores | Bayesian Structure Learning in Graphical Models
get_Ds_tgm_R | Bayesian Structure Learning in Graphical Models
get_graph | Bayesian Structure Learning in Graphical Models
get_g_prior | Bayesian Structure Learning in Graphical Models
get_g_start | Bayesian Structure Learning in Graphical Models
get_K_start | Bayesian Structure Learning in Graphical Models
get_S_n_p | Bayesian Structure Learning in Graphical Models
get_Ts_R | Bayesian Structure Learning in Graphical Models
global_hc | Bayesian Structure Learning in Graphical Models
global_hc_binary | Bayesian Structure Learning in Graphical Models
gnorm | Normalizing constant for G-Wishart
graph.sim | Graph simulation
hill_climb_mpl | Bayesian Structure Learning in Graphical Models
hill_climb_mpl_binary | Bayesian Structure Learning in Graphical Models
link2adj | Extract links from an adjacency matrix
local_mb_hc | Bayesian Structure Learning in Graphical Models
local_mb_hc_binary | Bayesian Structure Learning in Graphical Models
log_mpl_binary | Bayesian Structure Learning in Graphical Models
log_mpl_disrete | Bayesian Structure Learning in Graphical Models
log_post_cond_dw | Bayesian Structure Learning in Graphical Models
near_positive_definite | Bayesian Structure Learning in Graphical Models
pdweibull | The Discrete Weibull Distribution (Type 1)
pgraph | Posterior probabilities of the graphs
plinks | Estimated posterior link probabilities
plot.bdgraph | Plot function for 'S3' class "'bdgraph'"
plot.graph | Plot function for 'S3' class '"graph"'
plot.sim | Plot function for 'S3' class "'sim'"
plotcoda | Convergence plot
plotroc | ROC plot
posterior.predict | Posterior Predictive Samples
precision | Estimated precision matrix
predict.bdgraph | Predict function for 'S3' class "'bdgraph'"
print.bdgraph | Print function for 'S3' class "'bdgraph'"
print.sim | Print function for 'S3' class "'sim'"
qdweibull | The Discrete Weibull Distribution (Type 1)
rdweibull | The Discrete Weibull Distribution (Type 1)
reinis | Risk factors of coronary heart disease
rgwish | Sampling from G-Wishart distribution
rmvnorm | Generate data from the multivariate Normal distribution
roc | Build a ROC curve
rwish | Sampling from Wishart distribution
sample_ug | Bayesian Structure Learning in Graphical Models
select | Graph selection
sparsity | Compute the sparsity of a graph
summary.bdgraph | Summary function for 'S3' class "'bdgraph'"
surveyData | Labor force survey data
traceplot | Trace plot of graph size
transfer | transfer for count data
update_mu_R | Bayesian Structure Learning in Graphical Models
update_tu_R | Bayesian Structure Learning in Graphical Models