Dear list members,
I wonder whether anyone of you has a code for phyldataplot (or any other
plotting function) that allows for plotting the distributions of variable
(e.g., boxplots) next to the phylogeny giving something like:
Hi Martin.
The easiest way to do this is to create two side-by-side plots using
par(mfcol=c(1,2)) and then put your tree your boxplot in the two
plots; however one has to be very careful in that case to ensure that
the tips align to the correct boxes. I posted a demo of this to my blog.
Let
Hi Solomon,
It’s because neither of the things you are estimating are Blomberg’s K and both
are different from one another. In Caper, you are estimating Pagel’s Kappa (a
branch length transformation that attempts to explain evolutionary change as
punctuational [1] vs gradual [=1] ), while in
Hi everyone,
I'd like to get some opinions on why estimates of Bloomberg's k are
different using the packages ape and caper in R.
Please see the code below for example, in which I used the same data but
got different estimates of k. In my own data, the estimated ks were
completely opposite:
