[R-sig-phylo] iterative pruning from alignment and tree

Hi folks, I'm starting to use APE, and am trying to write a script to iteratively prune taxa from an alignment / tree combination and print the reduced datasets to separate files. I was thinking of using some combination of drop.tip + DNAbin, but I am unsure of how to link removing the tip labels

Re: [R-sig-phylo] Model-Selection vs. Finding Models that "Fit Well"

Florian- Doesn't white noise have two parameters, mean and variance, and thus is just as complex as the Brownian Motion model? I guess LRT could be done against both. That said, it isn't clear to me that what it means for the White Noise to fit best, as WN is interpretable as an evolutionary scena

Re: [R-sig-phylo] iterative pruning from alignment and tree

Hi John, John Denton wrote on 31/01/2011 01:30: Hi folks, I'm starting to use APE, and am trying to write a script to iteratively prune taxa from an alignment / tree combination and print the reduced datasets to separate files. I was thinking of using some combination of drop.tip + DNAbin, but