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A Practical Guide to Phylogenetics for Nonexperts
Published on: February 5, 2014
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KATKA: A KRAKEN-like tool with given at query time
Travis Gagie1, Sana Kashgouli1, Ben Langmead2
1Dalhousie University.
Abstract:
We describe a new tool, KATKA, that stores a phylogenetic tree such that later, given a pattern and an integer , it can quickly return the root of the smallest subtree of containing all the genomes in which the k-mer occurs, for . This is similar to KRAKEN's functionality but with given at query time instead of at construction time.
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