Today I made what amounts to quite a small update to the
"phenogram95" method in the function
This function plots a 95% high probability density region around a
reconstructed 'traitgram' (i.e., a projection of the tree into a space
defined by one phenotypic trait on the vertical axis and type since the root
on the horizontal axis). This visual effect is accomplished by increasingly
transparently shaded lines. The update permits user control of transparency
shading which, at present, is completely arbitrary. Here's what that looks
##  '0.4.35'
## simulate a tree & data tree<-pbtree(n=26,tip.label=LETTERS,scale=1) x<-fastBM(tree) ## create 95% traitgram fancyTree(tree,x=x,type="phenogram95",tlim=c(1,25)) ## light shading
fancyTree(tree,x=x,type="phenogram95",tlim=c(10,50)) ## dark shading
Transparency upper & lower limits should be specified on the interval (0,99).