BDgraph: Bayesian Structure Learning in Graphical Models using Birth-Death MCMC
Version 2.37

Provides statistical tools for Bayesian structure learning in undirected graphical models for continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models literature, including Mohammadi and Wit (2015) and Mohammadi et al. (2017) . To speed up the computations, the BDMCMC sampling algorithms are implemented in parallel using OpenMP in C++.

Browse man pages Browse package API and functions Browse package files

AuthorAbdolreza Mohammadi and Ernst Wit
Date of publication2017-05-25 00:29:19 UTC
MaintainerAbdolreza Mohammadi <a.mohammadi@rug.nl>
LicenseGPL (>= 2)
Version2.37
URL https://www.tilburguniversity.edu/webwijs/show/a.mohammadi.htm
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("BDgraph")

Man pages

bdgraph: Search algorithm in graphical models
BDgraph-internal: Internal BDgraph functions and datasets
bdgraph.mpl: Search algorithm in graphical models using marginal...
bdgraph.npn: Nonparametric transfer
BDgraph-package: Bayesian Structure Learning in Graphical Models
bdgraph.sim: Graph data simulation
bdgraph.ts: Search algorithm in time series graphical models
compare: Graph structure comparison
geneExpression: Human gene expression dataset
gnorm: Normalizing constant for G-Wishart
pgraph: Posterior probabilities of the graphs
plinks: Estimated posterior link probabilities
plot.bdgraph: Plot function for 'S3' class '"bdgraph"'
plotcoda: Convergence plot
plotroc: ROC plot
plot.sim: Plot function for 'S3' class '"sim"'
print.bdgraph: Print function for 'S3' class '"bdgraph"'
print.sim: Print function for 'S3' class '"sim"'
rcwish: Sampling from Complex Wishart distribution
reinis: Risk factors of coronary heart disease
rgcwish: Sampling from complex G-Wishart distribution
rgwish: Sampling from G-Wishart distribution
rwish: Sampling from Wishart distribution
select: Graph selection
summary.bdgraph: Summary function for 'S3' class '"bdgraph"'
surveyData: Labor force survey data
traceplot: Trace plot of graph size

Functions

BDgraph-internal Man page
compute_measures Man page
compute_tp_fp Man page
data_transform Man page
global_hc Man page
hill_climb_mpl Man page
local_mb_hc Man page
log_mpl_dis Man page
BDgraph Man page
BDgraph-package Man page
bdgraph Man page Source code
bdgraph.mpl Man page Source code
bdgraph.npn Man page Source code
bdgraph.sim Man page Source code
bdgraph.ts Man page Source code
compare Man page Source code
compute_measures Source code
compute_tp_fp Source code
data_transform Source code
geneExpression Man page
global_hc Source code
gnorm Man page Source code
hill_climb_mpl Source code
local_mb_hc Source code
log_mpl_disrete Source code
pgraph Man page Source code
plinks Man page Source code
plot.bdgraph Man page Source code
plot.sim Man page Source code
plotcoda Man page Source code
plotroc Man page Source code
print.bdgraph Man page Source code
print.sim Man page Source code
rcwish Man page Source code
reinis Man page
rgcwish Man page Source code
rgwish Man page Source code
rwish Man page Source code
select Man page Source code
summary.bdgraph Man page Source code
surveyData Man page
traceplot Man page Source code

Files

inst
inst/CITATION
src
src/gm_rj.cpp
src/Makevars
src/copula.cpp
src/gcgm_DMH.cpp
src/rgwish.h
src/ggm_bd.cpp
src/bd_for_ts.cpp
src/rgwish.cpp
src/matrix.cpp
src/MyLapack.cpp
src/gm_mpl_bd_dis.cpp
src/MyLapack.h
src/copula.h
src/gcgm_bd.cpp
src/gm_mpl_Hill_Climb.cpp
src/ggm_mpl_bd.cpp
src/Makevars.win
src/init.c
src/ggm_DMH.cpp
src/matrix.h
NAMESPACE
NEWS
data
data/reinis.RData
data/surveyData.RData
data/geneExpression.RData
R
R/select.R
R/rgwish.R
R/rgcwish.R
R/bdgraph.R
R/plotcoda.R
R/bdgraph.ts.R
R/hill_climb_algorithm.R
R/plinks.R
R/gnorm.R
R/bdgraph.mpl.R
R/traceplot.R
R/pgraph.R
R/rwish.R
R/compare.R
R/rcwish.R
R/bdgraph.npn.R
R/bdgraph.sim.R
R/plotroc.R
MD5
DESCRIPTION
man
man/BDgraph-package.Rd
man/traceplot.Rd
man/print.bdgraph.Rd
man/reinis.Rd
man/bdgraph.mpl.Rd
man/print.sim.Rd
man/rgwish.Rd
man/plot.bdgraph.Rd
man/plotcoda.Rd
man/bdgraph.sim.Rd
man/plotroc.Rd
man/plinks.Rd
man/surveyData.Rd
man/rgcwish.Rd
man/plot.sim.Rd
man/bdgraph.npn.Rd
man/compare.Rd
man/pgraph.Rd
man/bdgraph.ts.Rd
man/summary.bdgraph.Rd
man/rcwish.Rd
man/geneExpression.Rd
man/BDgraph-internal.Rd
man/gnorm.Rd
man/select.Rd
man/bdgraph.Rd
man/rwish.Rd
BDgraph documentation built on May 25, 2017, 1:03 a.m.