[R] Clustering and bootstrap

[Huntsinger, Reid]

I suppose you could average the distance matrices, getting a distance
matrix, and then apply hierarchical clustering... or threshold the average
distance matrix at a sequence of values and compute connected components for
each... that sounds like it's in the spirit of a "majority-rule consensus
tree" though I don't know what that is.

Reid Huntsinger

-----Original Message-----
From: r-help-bounces at stat.math.ethz.ch
[mailto:r-help-bounces at stat.math.ethz.ch] On Behalf Of Eric Pante
Sent: Wednesday, September 21, 2005 12:50 PM
To: r-help at stat.math.ethz.ch
Subject: [R] Clustering and bootstrap


Dear Listers,

I emailed the list a few days ago about how to bootstrap a community 
matrix (species by sites) and get a consensus tree with node support. A 
friend pointed out that a similar question remained unanswered in 2004.
I wish to re-word my question: is anyone aware of a package / method to 
obtain a majority-rule consensus tree from x distance matrices ? Is 
anyone using R to generate phylogenetic trees with node support ?

thanks for your time and consideration,
Eric P.


Eric Pante
---------------------------------------------------------------
Graduate Student in Marine Biology
Grice Marine Laboratory
205 Fort Johnson Road, Charleston SC 29412
---------------------------------------------------------------

	"On ne force pas la curiosite, on l'eveille ..."
	Daniel Pennac

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