[R-sig-phylo] prop.clades with different ordering of names in tip.label elements

2012-07-11 Thread Julien Lorion
Dear all, It seems that the last version of the prop.clades(phy, ..., part = NULL, rooted = FALSE) function does not allow different ordering of tip.label elements between phy and the list of trees ... Is there any work-around for that ? Thanks by advance Regards Julien

Re: [R-sig-phylo] PGLS, categorical data and regression through origin

2012-06-07 Thread Julien Lorion
.it [ppi...@uniroma3.it] Sent: Wednesday, June 06, 2012 9:55 AM To: Julien Lorion Cc: r-sig-phylo@r-project.org Subject: Re: [R-sig-phylo] PGLS, categorical data and regression through origin Dear Julien, maybe I dont understand your rmodel...but IF your model has one continuous dep

[R-sig-phylo] PGLS, categorical data and regression through origin

2012-06-06 Thread Julien Lorion
individually ? Apologies for these very naive questions.. I guess answers are obvious to most of you but... Thanks in advance for your comments. Regards Julien Lorion PhD, Post-doctoral fellow of the Japan Society for the Promotion of Science Japan Agency for Marine-Earth Science and Technology

[R-sig-phylo] General question about the impact of sampling bias in comparative and diversification analyses

2012-05-23 Thread Julien Lorion
for which I have only 50% data? Thanks for any answer/comment/suggestion ! Regards Julien Julien Lorion PhD, Post-doctoral fellow of the Japan Society for the Promotion of Science Japan Agency for Marine-Earth Science and Technology (JAMSTEC) Marine Ecosystems Research Department 2-15 Natsushima

[R-sig-phylo] Best way to test correlation between discrete and continuous variables ?

2012-05-16 Thread Julien Lorion
Dear all, I am working on the evolution of deep-sea symbiotic mussels... I have got a tree and 5 characters: habitat (hydrothermal vents, cold seep and organic substrate), presence/absence of methanotrophic symbionts, presence/absence of sulfoxydizing symbionts, symbiont location (extra VS

Re: [R-sig-phylo] Best way to test correlation between discrete and continuous variables ?

2012-05-16 Thread Julien Lorion
-boun...@r-project.org [r-sig-phylo-boun...@r-project.org] on behalf of Marguerite Butler [mbutler...@gmail.com] Sent: Wednesday, May 16, 2012 12:27 PM To: Julien Lorion Cc: r-sig-phylo@r-project.org Subject: Re: [R-sig-phylo] Best way to test correlation between discrete and continuous