Can someone provide suggestions on which methods / softwares can perform fast and reliable estimates of diversification rates (speciation - extinction) using very large phylogenetic trees (> 10 000 tips)?
Hey Artur,
many thanks for your suggestion.
The thing is that I want to estimate the rates (diversification, speciation and extinction) for each tip or clade in the phylogeny.
So all tips are necessary, also because the estimates can be more accurate when the estimates are based on the full evolutionary history of the group (angiosperm in my case). So my tree has 32 000 tips.
I was using BAMM before ( http://bamm-project.org/), but had a hard time with the results and also the analysis took very long to finish (more then one month).
I will have a look on the laser package and make some tests. Thanks
Hi Artur,
the laser package was removed from CRAN.
https://cran.r-project.org/web/packages/laser/index.html
Cheers
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