Lecture_7_phylogenetics

Compress i and j into k iterate algorithm for rest of

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Unformatted text preview: e dij(T) - the length of a path between leaves i and j dij(T) – tree distance between i and j Distance in Trees: An Exampe j i Distance Matrix •  Given n species, we can compute the n x n distance matrix Dij •  Dij may be defined as the edit distance between a gene in species i and species j, where the gene of interest is sequenced for all n species. Dij – edit distance between i and j d1,4 = 12 + 13 + 14 + 17 + 12 = 68 Edit Distance vs. Tree Distance •  Given n species, we can compute the n x n distance matrix Dij •  Dij may be defined as the edit distance between a gene in species i and species j, where the gene of interest is sequenced for all n species. Dij – edit distance between i and j •  Note the difference with Firng Distance Matrix •  Given n species, we can compute the n x n distance matrix Dij •  Evolu?on of these genes is described by a tree that we don’t know. •  We need an algorithm to construct a tree that best fits the distance matrix Dij dij(T) – tree distance between i and j 6 9/16/13 Firng Distance Matrix Lengths of path in an (unknown) tree T •  Firng means Dij = dij(T) Edit distance between species (known) Reconstruc?...
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This note was uploaded on 02/10/2014 for the course CS 425 taught by Professor Asaben-hur during the Fall '13 term at Colorado State.

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