Hi,
On Sep 11, 2009, at 8:22 AM, Arber Ngjela wrote:
Hello,
I am working with graph and adjacency matrix, the package 'graph'
seems to be appropriate for this.
An example in the package
mat <- rbind(c(0, 0, 1, 1),
+ c(0, 0, 1, 1),
+ c(1, 1, 0, 1),
+ c(1, 1, 1, 0))
rownames(mat) <- colnames(mat) <- letters[1:4]
graph1 <- new("graphAM", adjMat=mat)
graph1
A graphAM graph with undirected edges
Number of Nodes = 4
Number of Edges = 5
how can I plot the object graph1?
I haven't used the graph library, but I do use the igraph library a
bit and it's quite good (highly recommended). There is a tkplot
function implemented which not only plots your graph, but allows you
to pull/push nodes around on the screen, select, etc (you'll need the
tcl/tk stuff installed).
Like so:
library(igraph)
mat <- rbind(c(0, 0, 1, 1),
c(0, 0, 1, 1),
c(1, 1, 0, 1),
c(1, 1, 1, 0))
dimnames(mat) <- list(LETTERS[1:4], LETTERS[1:4])
graph <- graph.adjacency(mat)
tkplot(graph)
(you can specify different layouts, too).
HTH,
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact
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