plotExGraph: plot a gene network, coloring nodes according to relative...
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Description Usage Arguments Details Value Author(s) Examples

View source: R/plotExG.R

plot a gene network, coloring nodes according to relative expression values

1	plotExGraph(g, es, sampind=1, pal=colorRampPalette(brewer.pal(9, "Blues"))(length(nodes(g))), attgen=pwayRendAttrs)

`g`	graph representing a gene network
`es`	an ExpressionSet instance
`sampind`	sample to be used to obtain relative expression values
`pal`	palette for coloring the nodes
`attgen`	attribute generating function

plots a colored network on the current graphics display

as returned by Rgraphviz plot method for graphNEL instances

Vince Carey <stvjc@channing.harvard.edu>

library(graph)
data(pancrCaIni)
library(ALL)
data(ALL)
library(hgu95av2.db)
collap1 = reduceES( ALL, nodes(pancrCaIni), revmap(hgu95av2SYMBOL), "symbol", mean )
library(RColorBrewer)
plotExGraph( pancrCaIni, collap1, 1 )