MO640 - Exercises - SCJ Distances and Medians, Feijao and Meidanis 2011

Exercises marked with (*) require further reading/search beyond the suggested texts.

  1. Solve the small phylogeny problem under SCJ for the genomes and topology below.

    five genomes phylogeny

  2. For the same data as in Exercise 1, find ancestral states as follows. For each internal node, compute an SCJ weighted median using all descendant leaves with equal weights. How does this differ from the solution given in Exercise 1?

  3. Considering again the data from Exercise 1, can you find a more parsimonious topology than the one shown, for these 5 genomes, under the SCJ distance?

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© 2015 Joao Meidanis