plot.nem {nem} | R Documentation |
plot graph of nested effect model, the marginal likelihood distribution or the posterior position of the effected genes
plot.nem(x, what="graph", remove.singletons=FALSE, PDF=FALSE, filename="nemplot.pdf", thresh=0, transitiveReduction=FALSE, ...)
x |
nem object to plot |
what |
(i), "graph", (ii) "mLL" = likelihood distribution, (iii) "pos" = posterior position of effected genes |
remove.singletons |
remove unconnected nodes from the graph plot |
PDF |
output as PDF-file |
filename |
filename of PDF-file |
thresh |
if x has a real valued adjacency matrix (weight matrix), don't plot edges with weight <= thresh |
transitiveReduction |
plot a transitively reduced graph |
... |
other arguments to pass |
none
Florian Markowetz <URL: http://genomics.princeton.edu/~florian>