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Re: [dinosaur] Dinosauria reclassification joins Ornithischia and Theropoda in Ornithoscelida

Gesendet: Freitag, 24. März 2017 um 00:23 Uhr
Von: "Ruben Safir" <ruben@mrbrklyn.com>

> On 03/23/2017 03:29 PM, David Marjanovic wrote:
> > Do tell. As a phylogeneticist, I'm all ears!
> Where were you 2 months ago when I was boning up on the computational
> math that is being used? The texts and articles that we have reviewed
> continued to have a lack of coherent methodology or theory, is often
> factually wrong (sometimes in critical areas, and sometimes later
> corrected) and play fast and loose with mathematical modeling.


What modeling?

The distinctive feature of the method called "parsimony" or "maximum parsimony" 
(a somewhat misleading name) is that it doesn't use a model of evolution at 
all, if that's what you mean. It's nonparametric. That's the method Baron et 
al. used; it's all TNT does, actually (unlike PAUP*, which can also use 
distance methods and maximum likelihood).

Would you like to talk about the advantages and disadvantages of "maximum 
parsimony" and model-based methods? There's an interesting conversation to be 
had there.

> I would personally start a Free Software project to create a
> standardized code base, and build an effort to pull in all the strings
> of research on the computational analysis, into a coherent body of
> knowledge that shares terminology, and models. and which can be broadly
> reviewed and embedded into the software design. I think some fellows at
> MIT would be interested in such a project.

Then ask them. They're probably not reading this.

BTW, why do you still send us your multi-kilobyte signature in every message? I 
think we know it all by heart now, including your quotes of yourself.