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DATE 2016-09-01

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MESSAGE
DATE 2016-09-25
FROM ruben safir
SUBJECT Re: [Learn] Cladistics and Computational Math
From learn-bounces-at-nylxs.com Sun Sep 25 03:02:46 2016
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To: learn-at-nylxs.com
From: ruben safir
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On 09/24/2016 07:12 PM, John Harshman wrote:
> On 9/24/16 2:21 PM, ruben safir wrote:
>> On 09/24/2016 03:40 PM, John Harshman wrote:
>>>
>>> Depends on what you mean by cladistics. What do you mean? There are
>>> methods used for morphological phylogeny that do not rely on strict
>>> parsimony, though parsimony is still probably the most common.
>>
>> What is the definition of the word parsimony in regards to evolutionary
>> biology. It can't be the economics term I'm used to.
>>
>
> These are the buzzwords you have to learn if you want to deal with
> phylogenetics. Here's a short primer, beginning with a detour.
>
> Phylogenetic analyses act on data sets to produce favored trees. Most
> methods do this by first setting a numerical optimality criterion,
> assessing that criterion for lots and lots of candidate trees, and
> picking the one that's best by that criterion. Parsimony is one such
> criterion. Briefly, a tree's parsimony score is the minimum number of
> character state changes, somewhere on the tree, necessary to explain the
> distribution of all character states in the terminal taxa. Parsimony
> algorithms perform the calculations necessary to determine the parsimony
> score. The lower the score, that is, the fewer the required changes, the
> better.
>
> (Let's leave aside the historical reasons for the name "parsimony". It
> has to do with philosophy of science, specifically Karl Popper.)


From usenet sci.bio.paleontology
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  1. 2016-09-01 Ruben Safir <ruben.safir-at-my.liu.edu> Subject: [Learn] Fwd: LIU CS course
  2. 2016-09-04 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] LIU Brooklyn Student Update
  3. 2016-09-04 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] LIU Brooklyn Student Update
  4. 2016-09-04 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] LIU Lockout
  5. 2016-09-08 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] LIU Computer Sciences
  6. 2016-09-10 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] LIU Lock Out
  7. 2016-09-10 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] [Hangout-NYLXS] Fwd: LIU Lock Out
  8. 2016-09-10 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] LIU Lock Out
  9. 2016-09-12 Amy Rothenberg <Amy.Rothenberg-at-liu.edu> Re: [Learn] LIU Lock Out
  10. 2016-09-13 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: [isoc-ny] ISOC-NY joins coalition of groups supporting
  11. 2016-09-14 From: "Ruben.Safir" <ruben.safir-at-my.liu.edu> Subject: [Learn] Fwd: Calendar Update
  12. 2016-09-19 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Re: Thesis option
  13. 2016-09-21 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Fossil computational oppurtunities
  14. 2016-09-21 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fossil computational oppurtunities
  15. 2016-09-22 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] Sad News
  16. 2016-09-23 Christopher League <league-at-contrapunctus.net> Re: [Learn] Thesis - topic Machine learning in the determination of
  17. 2016-09-23 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Thesis - topic Machine learning in the determination of the
  18. 2016-09-25 ruben safir <ruben-at-mrbrklyn.com> Re: [Learn] Cladistics and Computational Math
  19. 2016-09-25 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Thesis
  20. 2016-09-25 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Thesis - topic Machine learning in the determination of
  21. 2016-09-25 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Cladistics and Computational Math
  22. 2016-09-26 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Proposed Thesis
  23. 2016-09-26 Jon Tennant <jon.tennant.2-at-gmail.com> Re: [Learn] Proposed Thesis
  24. 2016-09-26 Jon Tennant <jon.tennant.2-at-gmail.com> Re: [Learn] Proposed Thesis
  25. 2016-09-26 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Proposed Thesis
  26. 2016-09-26 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Proposed Thesis
  27. 2016-09-27 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] phylip
  28. 2016-09-27 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] phylip
  29. 2016-09-27 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] t-rex web server
  30. 2016-09-28 From: "Pinsdorf, Michelle" <PinsdorfM-at-si.edu> Re: [Learn] little can be better
  31. 2016-09-28 From: "Pinsdorf, Michelle" <PinsdorfM-at-si.edu> Re: [Learn] little can be better
  32. 2016-09-28 league-at-contrapunctus.net Re: [Learn] meet up for thesis?
  33. 2016-09-28 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] meet up for thesis?
  34. 2016-09-28 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] meet up for thesis?
  35. 2016-09-28 Maneesh Kongara <maneeshkongara-at-gmail.com> Re: [Learn] meet up for thesis?
  36. 2016-09-28 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] meet up for thesis?
  37. 2016-09-28 Christopher League <league-at-contrapunctus.net> Re: [Learn] Thesis - topic Machine learning in the determination of
  38. 2016-09-28 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] meet up for thesis?
  39. 2016-09-28 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Notice: Learn Mailing List for LIU
  40. 2016-09-28 Ben Creisler <bcreisler-at-gmail.com> Subject: [Learn] [dinosaur] T. rex tail CT scan + Utahraptor quicksand death
  41. 2016-09-28 Ben Creisler <bcreisler-at-gmail.com> Subject: [Learn] [dinosaur] T. rex tail CT scan + Utahraptor quicksand death
  42. 2016-09-29 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] Announcing LIU Votes 2016!
  43. 2016-09-29 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] phylogenetics
  44. 2016-09-29 Jon Tennant <jon.tennant.2-at-gmail.com> Re: [Learn] phylogenetics
  45. 2016-09-29 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] two textbooks
  46. 2016-09-30 league-at-contrapunctus.net Re: [Learn] Thesis data
  47. 2016-09-30 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Thesis data
  48. 2016-09-30 league-at-contrapunctus.net Re: [Learn] Thesis data
  49. 2016-09-30 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Thesis data

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