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Trees, Arrays, Networks and Optimization for Finding Patterns in Biological Sequences

Trees, Arrays, Networks and Optimization for Finding Patterns in Biological Sequences

This video was recorded at The Analysis of Patterns, Erice 2005. a) The use of suffix trees and integer programming for finding optimal virus signatures. b) A current treatment of suffix-arrays and their uses. In the last several years simple linear-time algorithms for building suffix arrays have been developed making explicit suffix-trees mostly obsolete. c) Algorithms for finding signatures (patterns) of historical recombination and gene-conversion in SNP (binary) sequences. The techniques here relate to graph-theory.

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