Abstract:We consider the problem of representing a set of k-mers and their abundance counts, or weights, in compressed space so that assessing membership and retrieving the weight of a k-mer is efficient. The representation is called a weighted dictionary of k-mers and finds application in numerous tasks in Bioinformatics that usually count k-mers as a pre-processing step. In fact, k-mer counting tools produce very large outputs that may result in a severe bottleneck for subsequent processing. In this work we extend th… Show more
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