traceplot {BDgraph}R Documentation

Trace plot of graph size

Description

Trace plot for graph size for the objects of S3 class "bdgraph", from function bdgraph. It is a tool for monitoring the convergence of the sampling algorithms, BDMCMC and RJMCMC.

Usage

 traceplot ( bdgraph.obj, acf = FALSE, pacf = FALSE, main = NULL, ... ) 

Arguments

bdgraph.obj

object of S3 class "bdgraph", from function bdgraph. It also can be an object of S3 class "ssgraph", from the function ssgraph::ssgraph() of R package ssgraph::ssgraph().

acf

visualize the autocorrelation functions for graph size.

pacf

visualize the partial autocorrelations for graph size.

main

graphical parameter (see plot).

...

system reserved (no specific usage).

Author(s)

Reza Mohammadi a.mohammadi@uva.nl and Ernst Wit

References

Mohammadi, R. and Wit, E. C. (2019). BDgraph: An R Package for Bayesian Structure Learning in Graphical Models, Journal of Statistical Software, 89(3):1-30, doi:10.18637/jss.v089.i03

Mohammadi, A. and Wit, E. C. (2015). Bayesian Structure Learning in Sparse Gaussian Graphical Models, Bayesian Analysis, 10(1):109-138, doi:10.1214/14-BA889

Dobra, A. and Mohammadi, R. (2018). Loglinear Model Selection and Human Mobility, Annals of Applied Statistics, 12(2):815-845, doi:10.1214/18-AOAS1164

Mohammadi, A. et al (2017). Bayesian modelling of Dupuytren disease by using Gaussian copula graphical models, Journal of the Royal Statistical Society: Series C, 66(3):629-645, doi:10.1111/rssc.12171

Mohammadi, A. and Dobra, A. (2017). The R Package BDgraph for Bayesian Structure Learning in Graphical Models, ISBA Bulletin, 24(4):11-16

See Also

plotcoda, bdgraph, bdgraph.mpl

Examples

## Not run: 
# 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, iter = 10000, burnin = 0, save = TRUE )
   
traceplot( bdgraph.obj )
   
traceplot( bdgraph.obj, acf = TRUE, pacf = TRUE )

## End(Not run)

[Package BDgraph version 2.72 Index]