qtlnet (version 1.3.3)

graphviz.qtlnet: qtlnet plot using Rgraphviz

Description

Plot inferred causal network using Rgraphviz package.

Usage

Rgraphviz.qtlnet(graph, layout.method = "dot", ...)

Arguments

graph

Object of class igraph, as produced by graph.qtlnet.

layout.method

Character string indicating Rgraphviz layout method. Choices are "dot", "neato", "twopi", "circo" and "fdp". See y argument to

...

Additional arguments passed to internal routines for properties of edges (lwd=3) and vertices (fontsize=18, width=3, height=1).

Value

• Whatever is returned by plot.graph.

Details

Rgraphviz package is very flexible, but it depend on the external package graphviz. The package igraph is offered as default for plotting (see igraph.qtlnet), but users can invoke Rgraphviz.qtlnet if they have the Rgraphviz package and its external routine properly installed on their system.

References

Chaibub Neto E, Keller MP, Attie AD, Yandell BS (2010) Causal Graphical Models in Systems Genetics: a unified framework for joint inference of causal network and genetic architecture for correlated phenotypes. Ann Appl Statist 4: 320-339. http://www.stat.wisc.edu/~yandell/doc/2010/92.AnnApplStat.pdf

See Also

graph.qtlnet, igraph, plot.graphNEL.

Examples

gr <- igraph.qtlnet(Pscdbp.qtlnet)
Rgraphviz.qtlnet(gr)