Re: [R] Weighted association map

From: Gabor Grothendieck <ggrothendieck_at_gmail.com>
Date: Fri 08 Sep 2006 - 09:37:22 GMT

Try the sna package. Below we calculate the correlation matrix, kor, of the numeric cols of builtin iris dataset. Zap negative ones and discretize rest to get lwd width matrix, lwd, used for edge widths. From that create the adjacency matrix, sign(lwd), and plot it using indicated layout mode. Seems like three of the variables are correlated and Sepal.Width is uncorrelated or negatively correlated to those. Try playing around with gplot args to create variations.

library(sna)
set.seed(123) # layout uses random numbers kor <- cor(iris[1:4])
lwd <- replace(kor, TRUE, 10 * round(pmax(0, kor), 1)) gplot(sign(lwd), edge.lwd = lwd, displaylabels = TRUE, label = rownames(kor))

On 9/8/06, kone <attenka@utu.fi> wrote:
> Could somebody program this kind of plot type to R, if none exists,
> based on mds or correlation tables or some more suitable method? What
> do you think about idea? Does it work? None similar or better exists?
>
> http://weightedassociationmap.blogspot.com/
>
>
> Atte Tenkanen
> University of Turku, Finland
>
> ______________________________________________
> 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.
>



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. Received on Fri Sep 08 20:57:20 2006

Archive maintained by Robert King, hosted by the discipline of statistics at the University of Newcastle, Australia.
Archive generated by hypermail 2.1.8, at Fri 08 Sep 2006 - 12:30:04 GMT.

Mailing list information is available at https://stat.ethz.ch/mailman/listinfo/r-help. Please read the posting guide before posting to the list.