Re: [R-sig-phylo] Transforming a data.frame into a phylogenetic tree

Hi, It appears you are keeping track of the ancestor by its character matrix. (So this is a speciational model of character evolution, I guess?) I've coded simulations that produce similar data for paleobiological comparison, but I just have a single column for the ancestor ID. (My own functions u

[R-sig-phylo] Transforming a data.frame into a phylogenetic tree

Dear users, I am currently doing a model of community assembly, and I would like to integrate phylogenetic information. For each organism, I know its ancestor and the time at which speciation occured. These informations are stored in a data.frame, an example of which is here : > PhyloTree

Re: [R-sig-phylo] Bayesian dating in R vs. Multidivtime

Emmanuel, you should check Lagopus (), which seems to connect R with multidivtime (based on documentation -- I haven't used it). Best, Brian On Jan 26, 2010, at 11:19 AM, Emmanuel Paradis wrote: Dear all, I'm planning to do some molecular dat

[R-sig-phylo] Bayesian dating in R vs. Multidivtime

Dear all, I'm planning to do some molecular dating using Bayesian methods, ie, what people usually do with Multidivtime. After reading the doc of Multidivtime, I'm thinking to do my own implementation in R since it is straightforward to specify priors, define and run the Markov chain, and cal