2004Quiz2 - Page 1 Integrative Biology 200A 2004 Name"PRINCIPLES OF PHYLOGENETICS Spring Quiz 2 You may use any books notes or references but you

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Page 1 Name _________________________ Integrative Biology 200A "PRINCIPLES OF PHYLOGENETICS" Spring 2004 Quiz 2 You may use any books, notes, or references, but you must work independently of other people. To keep the amount of writing under control, please confine the answers to the space provided (but write clearly and large enough to see!); outlines are fine. 1. Short Answers (5 pts. each): A. Compare and contrast Bremer support, Bootstrap support, and Bayesian posterior probability measures. B. Give an example of a step matrix you might use in a parsimony analysis, and why you would use it? C. Describe two methods that are unique to Bayesian inference to avoid being trapped on a local optimum. D. Why and how would you incorporate user-defined constraint trees in a phylogenetic analysis?
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Page 2 Name _________________________ E. Explain the difference between ACCTRAN and DELTRAN optimizations. Contrast them in terms of two biological processes. Why is it important to consider how characters are optimized?
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This note was uploaded on 08/01/2008 for the course IB 200 taught by Professor Lindberg,mishler,will during the Spring '08 term at University of California, Berkeley.

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2004Quiz2 - Page 1 Integrative Biology 200A 2004 Name"PRINCIPLES OF PHYLOGENETICS Spring Quiz 2 You may use any books notes or references but you

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