Hello again,
It seems you and Joseph are right about the full trees, they are indeed
downloadable. What I meant to say was that you can download phylogeny
subsets at the mainpage of the site. This procedure (that has a limit of
2500 species) would make your work easier, as you would get
Hi Elaine
The online tool is limited to 2500 species because we have found the server
essentially grinds to a halt if we go beyond that.
Jan is correct about the original data set. Each file contains 1000 trees. I
would not advise trying to read these into R in one go. It is possible to read
Hi Gavin et al.
read.tree can accept a character string as input, so in theory you
should be able to skip writing to file then reading in - which could
be quite slow for very large trees.
temptree - scan(MY_FILEPATH, what = , sep = \n, quiet = TRUE,
skip = 0, comment.char = #, nlines=1)
Hi Vincenzo.
I can't say if this is a *good* idea or not, but if you are going to do
it, then you might want to use phytools:phylosig instead of
fitContinuous as it runs much faster (at least, relative to the present
version of 'geiger'), e.g.:
nn-100 # number of reps
