Hi everyone,
I was wondering is exist a function that is able to generate OTUs from a
sequences database.
Thank you very much in advance,
--
Gian
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Hi
I used the method of Kuhn et al (2011) to resolve polytomies in my tree leaving
me with a posterior of thousands of trees. I was wondering how I would go about
using PGLS on a sample of these trees so that the uncertainty in the resolution
of the polytomies is incorporated into my analysis
Dear Gian,
Have you looked at the spider package? Sequences can be downloaded from
the GenBank or BOLD databases, and OTUs can then be estimated from a
distance matrix using a predefined threshold (tclust function), or by a
threshold estimated from the data (localMinima function).
If you want
Date: Thu, 14 Mar 2013 10:21:39 +0100
From: Gian Maria Niccol? Benucci gian.benu...@gmail.com
To: r-sig-phylo@r-project.org
Subject: [R-sig-phylo] How to cluster sequences in different OTUs
Hi everyone,
I was wondering is exist a function that is able to generate OTUs from a
sequences
This is easy to do using Bayesian methods. See:
http://www.biomedcentral.com/content/pdf/1471-2148-12-102.pdf
Cheers,
Simon.
On 14/03/13 22:25, Ferguson-Gow, Henry wrote:
Hi
I used the method of Kuhn et al (2011) to resolve polytomies in my tree leaving
me with a posterior of thousands of
