[R] Clustering and bootstrap

Huntsinger, Reid reid_huntsinger at merck.com
Wed Sep 21 20:46:50 CEST 2005

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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