https://github.com/cran/BDgraph
Tip revision: 72b95efce3f7c808386f6e86b3789d004a213bf5 authored by Reza Mohammadi on 25 December 2022, 06:20:14 UTC
version 2.72
version 2.72
Tip revision: 72b95ef
plot.graph.Rd
\name{plot.graph}
\alias{plot.graph}
\title{ Plot function for \code{S3} class \code{"graph"} }
\description{ Visualizes structure of the graph. }
\usage{
\method{plot}{graph}( x, cut = 0.5, mode = "undirected", diag = FALSE, main = NULL,
layout = igraph::layout_with_fr, vertex.size = 2, vertex.color = "orange",
vertex.frame.color = "orange", vertex.label = NULL, vertex.label.dist = 0.5,
vertex.label.color = "blue", edge.color = "lightblue", ... )
}
\arguments{
\item{x}{ object of \code{S3} class \code{"graph"}, from function \code{\link{graph.sim}}. }
\item{cut}{ for the case where input '\code{x}' is the object of class "bdgraph" or "ssgraph". Threshold for including the links in the selected graph based on the estimated posterior probabilities of the links. }
\item{mode}{ type of graph which is according to \code{R} package \code{\link[igraph]{igraph}}.}
\item{diag}{ logical which is according to \code{R} package \code{\link[igraph]{igraph}}.}
\item{main}{ graphical parameter (see plot).}
\item{layout}{ vertex placement which is according to \code{R} package \code{\link[igraph]{igraph}}; For different layouts, see \code{\link[igraph]{layout}} of \code{R} package \code{igraph}. }
\item{vertex.size}{ vertex size which is according to \code{R} package \code{\link[igraph]{igraph}}. }
\item{vertex.color}{ vertex color which is according to \code{R} package \code{\link[igraph]{igraph}}. }
\item{vertex.frame.color}{ vertex frame color which is according to \code{R} package \code{\link[igraph]{igraph}}. }
\item{vertex.label}{ vertex label. The default vertex labels are the vertex ids. }
\item{vertex.label.dist}{ vertex label distance which is according to \code{R} package \code{\link[igraph]{igraph}}. }
\item{vertex.label.color}{ vertex label color which is according to \code{R} package \code{\link[igraph]{igraph}}. }
\item{edge.color}{ edge color which is according to \code{R} package \code{\link[igraph]{igraph}}. }
\item{\dots}{ additional plotting parameters. For the complete list, see \code{\link[igraph]{igraph.plotting}} of \code{R} package \code{igraph}. }
}
\references{
Mohammadi, R. and Wit, E. C. (2019). \pkg{BDgraph}: An \code{R} Package for Bayesian Structure Learning in Graphical Models, \emph{Journal of Statistical Software}, 89(3):1-30, \doi{10.18637/jss.v089.i03}
}
\author{ Reza Mohammadi \email{a.mohammadi@uva.nl} }
\seealso{ \code{\link{graph.sim}}, \code{\link{bdgraph.sim}}, \code{\link{plot.igraph}} }
\examples{
# Generating a 'scale-free' graph
adj <- graph.sim( p = 20, graph = "scale-free" )
plot( adj )
}
\keyword{hplot}