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Titlebook: Combinatorial Pattern Matching; 24th Annual Symposiu Johannes Fischer,Peter Sanders Conference proceedings 2013 Springer-Verlag Berlin Heid

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Converting SLP to LZ78 in almost Linear Time,ch conversion in . time, where . is the number of LZ78 codewords. This improves on the previously known . solution [Bannai et al., SPIRE 2012]. The main tool in our algorithm is a data structure which allows us to efficiently operate on labels of the paths in a growing trie, and a certain method of
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A Bit-Parallel, General Integer-Scoring Sequence Alignment Algorithm,efficiency sequence alignment algorithms. In one approach, which exploits the inherent parallelism in computer logic calculations, individual cells in an alignment scoring matrix are represented as bits in a computer word and the calculation of scores is emulated by a series of bit operations compri
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,A Constant-Space Comparison-Based Algorithm for Computing the Burrows–Wheeler Transform,plicit storage for the suffix sort array and the output array, as typically required in previous work. It relies on the combinatorial properties of the ., and runs in .(..) time in the comparison model using .(1) extra memory cells, apart from the array of . cells storing the . characters of the inp
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Pattern Matching with Variables: A Multivariate Complexity Analysis,by uniformly substituting the variables of . by terminal words. It is a well-known fact that deciding whether a given terminal word matches a given pattern is an NP-complete problem. In this work, we consider numerous parameters of this problem and for all possible combinations of these parameters,
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