pcalg (version 2.0-3)

iplotPC: Plotting a pcAlgo object using the package igraph

Description

Notably, when the Rgraphviz package is not easily available, iplotPC() is an alternative for plotting a "pcAlgo" object, making use of package igraph.

It extracts the adjacency matrix and converts it into an object from package igraph which is then plotted.

Usage

iplotPC(pc.fit, labels = NULL)

Arguments

pc.fit

an Robject of class pcAlgo, as returned from skeleton() or pc().

labels

optional labels for nodes; by default, the labels from the pc.fit object are used.

Value

• Nothing. As side effect, the plot of pcAlgo object pc.fit.

See Also

showEdgeList for printing the edge list of a pcAlgo object; showAmat for printing the adjacency matrix of a pcAlgo object.

Examples

## Load predefined data
data(gmG)
n <- nrow    (gmG8$x)
V <- colnames(gmG8$x)

## define sufficient statistics
suffStat <- list(C = cor(gmG8$x), n = n)
## estimate CPDAG
pc.fit <- pc(suffStat, indepTest = gaussCItest,
             alpha = 0.01, labels = V, verbose = TRUE)

## Edge list
showEdgeList(pc.fit)

## Adjacency matrix
showAmat(pc.fit)

## Plot using package igraph; show estimated CPDAG:
iplotPC(pc.fit)