search for: nirk

Hi all, I seem to be having a difficult time using the 'ape' package in R when it comes to rooting trees. Here's a short screenshot: > nirK.tree Phylogenetic tree with 23 tips and 21 internal nodes. Tip labels: Burkholder, Burkholde3, Burkholde1, Burkholde4, Burkholde5, Ralstonia2, ... Node labels: , 100, 100, 100, 70, 91,... Unooted; includes branch lengths. > test<-root(nirk.tree, 4) Error in root(nirk.tree, 4) : subsc...

...couldn't find anything to help me move forward with this. Do I have to get deeper into the drawing commands, or is there something more obvious I'm just not seeing? My goal would be to place grid lines on the bottom face of the box and make drop lines to the grid. #example dat set nirK.env.nmds$points = cbind(rnorm(30),rnorm(30),rnorm(30)) par.set <- list(axis.line = list(col = "transparent"),clip = list(panel = "off")) print(cloud(nirk.env.nmds$points[,3]~nirk.env.nmds$points[, 1]*nirk.env.nmds$points[,2], col="red",pch=16,cex=...