Hi All, Have some questions about the Rgraphviz package and attributes that are being passed. I want to weight some edges in my graph based on some attributes. So to verify that this should be possible, I created a simple graph and used "fdp" when weights are present and when they are not, all from the command line, so I know what *should* be happening. "noweight.txt" graph G { A -- B [weight=1]; A -- C [weight=1]; C -- B [weight=1]; } fdp -Tjpg noweight.txt -o noweight.jpg This results in this: http://bioinformatics.louisville.edu/robert/graphViz_images/noweight.j pg "weight_BC.txt" graph G { A -- B [ weight=.1]; A -- C [ weight=.1]; C -- B [ weight=1]; } fdp -Tjpg weight_BC.txt -o weight_BC.jpg Results in: http://bioinformatics.louisville.edu/robert/graphViz_image s/weight_BC.jpg This is what I expect, I weight an edge higher, and the nodes are pushed together a little more. So I decide to try this in R: library(Rgraphviz) g1 <- new("graphNEL",nodes=c('A','B','C'),edgeL=list(A=c('B','C'),B=c( 'A','C'),C=c('A','B')),edgemode="undirected") edgeAttrs <- list(weight=list('A~B'=1,'A~C'=1,'B~C'=10)) g2 <- agopen(g1, name='test',layoutType="fdp") plot(g2) ## Gives me: http://bioinformatics.louisville.edu/robert/graphViz_imag es/noweight_R.png g3 <- agopen(g1, name='test',edgeAttrs=edgeAttrs,layoutType="fdp") plot(g3) ## Gives: http://bioinformatics.louisville.edu/robert/graphViz_images/ weight_BC_R.png This is not what I expected. From everything I can tell, the edge attributes are defined correctly. Is there something in the Rgraphviz code that does not recognize weights? Or is there something more at work here. Any insights would be very much appreciated. sessionInfo() R version 2.12.1 (2010-12-16) Platform: i386-pc-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages: [1] grid stats graphics grDevices utils datasets methods base other attached packages: [1] Rgraphviz_1.28.0 graph_1.28.0 loaded via a namespace (and not attached): [1] tools_2.12.1 Thanks, -Robert Robert M. Flight, Ph.D. University of Louisville Bioinformatics Laboratory University of Louisville Louisville, KY PH 502-852-1809 (HSC) PH 502-852-0467 (Belknap) EM robert.flight at louisville.edu EM rflight79 at gmail.com Williams and Holland's Law: ? ? ?? If enough data is collected, anything may be proven by statistical methods.