pathRender (version 1.40.0)

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

Description

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

Usage

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

Arguments

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

Value

as returned by Rgraphviz plot method for graphNEL instances

Details

plots a colored network on the current graphics display

Examples

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 )