[Taxacom] Reproducibility of phylogenetic analysis

Peter Hovenkamp phovenkamp at casema.nl
Wed Jan 27 08:22:32 CST 2010


And it may well be the case that H isn't, either.

Peter Hovenkamp


J. Kirk Fitzhugh wrote:
> Re Popper, 'e' and 'H', from what appears in much of the systematics 
> literature (Cladistics and Syst. Biol. comes to mind for some odd 
> reason), elevating poor Karl to almost god-like status, we need to be 
> more concerned with what he was referring to by 'e'. For the most part, 
> systematists' notion of 'e' isn't what Popper intended when he spoke of 
> 'e' as test evidence.
>
> Kirk
>
> Richard Zander wrote:
>   
>> Popper got, rightly, knighted for his defense of democracy's foundation
>> in respect for the past and for reason (kind of Burkeian conservatism,
>> but what do you expect from the Queen, it's better than President's
>> Medals from the neocons (IMO)). He of course overemphasized
>> nomological-deductivism and sloughed off intuition, perhaps because of
>> what are not historical reasons for us, such as Nazi Aryanism and
>> Mussolini's superman "First do, then think!" Popper is understandable in
>> context, and the times were sad.
>>
>> I'm tried to struggle with his formal logic re evidence and hypothesis,
>> and found (I think) that somewhere in the middle of some pages of
>> "proof" that he switches e and H without telling. Blink and suddenly
>> evidence and hypothesis are no longer what they seem. No I don't really
>> understand it, but I am really doubtful. Anybody else get a similar
>> feeling about this?
>>
>>
>> *****************************
>> Richard H. Zander 
>> Voice: 314-577-0276
>> Missouri Botanical Garden
>> PO Box 299
>> St. Louis, MO 63166-0299 USA
>> richard.zander at mobot.org
>> Web sites: http://www.mobot.org/plantscience/resbot/
>> and http://www.mobot.org/plantscience/bfna/bfnamenu.htm
>> Modern Evolutionary Systematics Web site:
>> http://www.mobot.org/plantscience/resbot/21EvSy.htm
>> *****************************
>>
>>
>> -----Original Message-----
>> From: taxacom-bounces at mailman.nhm.ku.edu
>> [mailto:taxacom-bounces at mailman.nhm.ku.edu] On Behalf Of Sergio Vargas
>> Sent: Tuesday, January 26, 2010 12:28 PM
>> To: taxacom at mailman.nhm.ku.edu
>> Subject: [Taxacom] Reproducibility of phylogenetic analysis
>>
>> If I'm not wrong, Popper insisted that our brains are theory-based. So
>> we propose theories pretty much by nature... I guess. Testing them
>> allow us to reject the wrong ones. This is pretty much the same as to
>> say that we all have a non-flat prior distribution for the possible
>> explanations of a phenomenon. I think, however, Popper demonstrated
>> that the ratio between the prior and the posterior probability of an
>> hypothesis doesn't change after testing the hypothesis... not sure
>> though, is in the first postscriptum to the logik.
>>
>> anyways... he did said that all we have is Conjectures and their
>> Refutations... if a conjecture is not intuition, what is it?
>>
>> sergio
>>
>>   
>>     
>>> It's worth noting that Karl Popper, while insisting that science
>>>     
>>>       
>> advances by the testing of hypotheses, steered clear of just how we
>> should arrive at those hypotheses. Indeed, I seem to recall that he
>> admitted intuition there. The most respectable these days seems to be
>> the process of "inference to the best explanation" - which, surely,
>> requires just the intuition of a highly trained, talented expert.
>>
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>
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