Paul, i have no idea what functionality you need from graph, but if the igraph package can do what you want then it can easily convert this to a graph for you, basically it is just
threshold <- 0.5 g <- graph.adjacency(sim>threshoold) or you can create a weighted graph: g <- graph.adjacency(sim, weighted=TRUE) or a weighted graph after a threshold: sim2 <- sim sim2[ sim<threshold ] <- 0 g <- graph.adjacency(sim2, weighted=TRUE) etc. Best, Gabor On Tue, Aug 28, 2007 at 02:25:27PM -0700, H. Paul Benton wrote: > Hello, > > I apologise if someone has already answered this but I searched and > googled but didn't find anything. > > I have a matrix which gives me the similarity of each item to each > other. I would like to turn this matrix into something like what they > have in the graph package with the nodes and edges. > http://cran.r-project.org/doc/packages/graph.pdf . However I cannot find > a method to convert my matrix to an object that graph can use. > > my similarity matrix looks like: > > sim[1:4,] > a b c d > [a] 1.000000000 0.0223676 0.9723831 0.3943310 > [b] 0.325141612 1.0000000 0.9644216 0.5460461 > [c] 0.002109751 0.3426540 1.0000000 0.7080224 > [d] 0.250153137 0.1987485 0.7391222 1.0000000 > > please don't get caught up with the numbers I simple made this to show. > I have not produce the code yet to make my similitary matrix. > > Does anyone know a method to do this or do I have to write something. :( > If I do any starter code :D jj. If I've read something wrong or > misunderstood my apologies. > > cheers, > > > Paul > > > -- > Research Technician > Mass Spectrometry > o The > / > o Scripps > \ > o Research > / > o Institute > > ______________________________________________ > R-help@stat.math.ethz.ch mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. -- Csardi Gabor <[EMAIL PROTECTED]> MTA RMKI, ELTE TTK ______________________________________________ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
