Re: [R-sig-phylo] Model Selection and PGLS

2021-06-29 Thread Nathan Upham
the OLS or PGLS considered the null hypothesis? In > my case the AIC for OLS is within the 95% confidence intervals for the PGLS, > but is much lower than the mean value (it's close to the lower first standard > deviation of the AIC values). > > Sincerely, > Russell > > On

Re: [R-sig-phylo] Model Selection and PGLS

2021-06-28 Thread Nathan Upham
Hi Russell and all: I’ll respond here since the answer is related to the intended purpose of the VertLife mammal trees — i.e, capturing full uncertainty in node ages and phylogenetic relationships was one of the motivators for building the mammal trees in the way we did. This approach

Re: [R-sig-phylo] Using bind.tip and lapply on a multiPhylo object

2021-06-02 Thread Nathan Upham
Hi Russell: Glad to hear you’re using the VertLife mammal trees — they are built on a taxonomy of 5,911 species of which only 4,098 are sampled for DNA, so there is already a ~30% chunk that is placed using taxonomic constraints and birth-death branch lengths as sampled during the estimation