Re: [R-sig-phylo] Phylogenetic Signal in Internal Node Data

[Emmanuel Paradis]

Hi Matt,

You can think about a randomization procedure: rTraitDisc(), rTraitCont(), and 
rTraitMult() all have the option 'ancestor' to output the values of a trait 
simulated along a phylogeny for all terminal and internal nodes.

HTH

Best,

Emmanuel

- Le 27 Jan 21, à 0:42, Matthew Helmus mrhel...@gmail.com a écrit :

> Hello,
> 
> Is there a method that can test for phylogenetic signal in data associated
> with the internal nodes of a tree rather than data associated with tree
> tips?
> 
> Thank you!
> Matt
> 
> --
> Matthew R. Helmus, Ph.D.
> Integrative Ecology Lab 
> Center for Biodiversity 
> Department of Biology
> Temple University
> Philadelphia, PA 19122
> 
> facebook  twitter
>  instagram
> 
> Phone: 215 204-5989 <2152045989>
> Email: mrhel...@temple.edu
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> 
> 
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Re: [R-sig-phylo] Phylogenetic Signal in Internal Node Data

[Theodore Garland]

I can think of a kludge approach for a single trait.
Use Felsenstein's phylogenetically independent contrasts.
Work down from the tips, calculating the internal nodes as specified by the
algebra of the method.
Stop when you get to a set of nodes of interest.
Use the methods in Blomberg et al. (2003) on those calculated nodal values.
Cheers,
Ted

Theodore Garland, Jr., Distinguished Professor

Department of Evolution, Ecology, and Organismal Biology (EEOB)

University of California, Riverside

Riverside, CA 92521

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On Tue, Jan 26, 2021 at 9:43 AM Matthew Helmus  wrote:

> Hello,
>
> Is there a method that can test for phylogenetic signal in data associated
> with the internal nodes of a tree rather than data associated with tree
> tips?
>
> Thank you!
> Matt
>
> --
> Matthew R. Helmus, Ph.D.
> Integrative Ecology Lab 
> Center for Biodiversity 
> Department of Biology
> Temple University
> Philadelphia, PA 19122
>
> facebook  twitter
>  instagram
> 
> Phone: 215 204-5989 <2152045989>
> Email: mrhel...@temple.edu
> Office: 538 SERC, Main Campus
> <
> https://www.google.com/maps/place/Temple+University+Science+Education+and+Research+Center/@39.9816749,-75.1532405,18.25z/data=%214m5%211m2%212m1%211sserc+temple%213m1%211s0x:0x83e756437aed7a9c
> >
>
> --
>
> [[alternative HTML version deleted]]
>
> ___
> R-sig-phylo mailing list - R-sig-phylo@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
> Searchable archive at
> http://www.mail-archive.com/r-sig-phylo@r-project.org/
>

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[R-sig-phylo] Phylogenetic Signal in Internal Node Data

[Matthew Helmus]

Hello,

Is there a method that can test for phylogenetic signal in data associated
with the internal nodes of a tree rather than data associated with tree
tips?

Thank you!
Matt

--
Matthew R. Helmus, Ph.D.
Integrative Ecology Lab 
Center for Biodiversity 
Department of Biology
Temple University
Philadelphia, PA 19122

facebook  twitter
 instagram

Phone: 215 204-5989 <2152045989>
Email: mrhel...@temple.edu
Office: 538 SERC, Main Campus


--

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