BDgraph (version 2.25)

plot.bdgraph: Plot function for S3 class "bdgraph"

Description

Visualizes structure of the selected graphs which could be a graph with links for which their estimated posterior probabilities are greater than 0.5 or graph with the highest posterior probability.

Usage

## S3 method for class 'bdgraph':
plot( x, cut = 0.5, number.g = 1, layout = layout.circle, ... )

Arguments

x

An object of S3 class "bdgraph", from function bdgraph.

cut

Threshold for including the links in the selected graph based on the estimated posterior probabilities of the links; See the examples.

number.g

The number of graphs with the highest probabilities (default is 1).

layout

The vertex placement algorithm which is according to igraph package. The default is "layout.circle".

...

System reserved (no specific usage).

References

Mohammadi, A. and E. Wit (2015). Bayesian Structure Learning in Sparse Gaussian Graphical Models, Bayesian Analysis, 10(1):109-138 Mohammadi, A. and E. Wit (2015). BDgraph: An R Package for Bayesian Structure Learning in Graphical Models, arXiv:1501.05108 Mohammadi, A., F. Abegaz Yazew, E. van den Heuvel, and E. Wit (2015). Bayesian Gaussian Copula Graphical Modeling for Dupuytren Disease, arXiv:1501.04849

See Also

bdgraph

Examples

# Generating multivariate normal data from a 'random' graph
data.sim <- bdgraph.sim( n = 50, p = 6, size = 7, vis = TRUE )
   
bdgraph.obj <- bdgraph( data = data.sim )
   
plot( bdgraph.obj )
   
bdgraph.obj <- bdgraph( data = data.sim, save.all = TRUE )
   
plot( bdgraph.obj, number.g = 4 )
  
plot( bdgraph.obj, cut = 0.4 )