Thanks a lot for the answer Joe! However, I think you need to have species average for using methods like independent contrasts and PGLS right? How would you do it for a trajectory or series of specimens per species?
On Thu, Jun 30, 2016 at 11:18 PM, Joe Felsenstein <[email protected]> wrote: > > Damien Esquerre Gheur <[email protected]> wrote: > >> Dear morphometricians, >> >> >> I have a pretty big dataset of specimens for most species of pythons >> encompassing most of the size range for every species. I have been >> projecting the allometric trajectories and doing pairwise slope comparisons >> and things like that in Geomorph. However, it seems very obvious that the >> is a very strong phylogenetic signal in the data, as species within the >> same clade tend to have parallel trajectories. >> > ... > >> Would there be a way, for example, to extract a value for the slope and >> do an ancestral state reconstruction on that? Also, is there a way to >> incorporate phylogeny in slope comparison models? >> > > I don't know which package of morphometric programs you should use for > that, but in phylogenetic comparative methods, you can use your tree of N > species and obtain N-1 phylogenetic contrasts from your data. Those can > then be treated as independent data points, each of which has your full set > of coordinates. > > You could obtain a Generalized Procrustes superposition of your forms, > without resizing the specimens, then feed the resulting coordinates for > each species into one of the phylogenetic comparative methods packages. > > Joe > ---- > Joe Felsenstein [email protected] > Department of Genome Sciences and Department of Biology, > University of Washington, Box 355065, Seattle, WA 98195-5065 USA > > -- > MORPHMET may be accessed via its webpage at http://www.morphometrics.org > --- > You received this message because you are subscribed to the Google Groups > "MORPHMET" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org --- You received this message because you are subscribed to the Google Groups "MORPHMET" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected].
