[Taxacom] Felsenstein lecture available on-line

[Louise Crowley]

It is hardly the fault of POY that someone inadvertently or otherwise  
did not blast their sequences prior to analyzing them in POY.  Whether  
you choose to analyze dynamically with POY or statically with some  
other phylogenetic program, a bacterial sequence included in an  
analysis of Molluscan taxa is bound to give a curious result.

Louise


On Dec 5, 2008, at 5:19 PM, Dr. David Campbell wrote:

>> David Campbell wrote:
>> "Aligning or at least checking alignments by hand is a valuable way
>> to catch anomalous sequences, whereas feeding raw sequences into an
>> analysis that internalizes the homology model makes anomalous
>> sequences easy to overlook."
>>
>> Are you referring here to POY?
>
> POY is probably the most prominent example of what I was cautioning
> about.  Of course, you can look at the sequences and then feed them
> into POY, or even take a second look at anything that places oddly
> (especially if different genes are giving different results) after you
> run it, but I am aware of a few curious results that came out of POY
> due to bacterial or otherwise anomalous sequences that were supposed  
> to
> be molluscan.
>
> -- 
> Dr. David Campbell
> 425 Scientific Collections Building
> Department of Biological Sciences
> Biodiversity and Systematics
> University of Alabama, Box 870345
> Tuscaloosa AL 35487-0345  USA
>
>
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