Self-overlapping Occurrences and Knuth-Morris-Pratt Algorithm for Weighted Matching
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- Liefooghe A., Touzet H., Varré JS. (2009) Self-overlapping Occurrences and Knuth-Morris-Pratt Algorithm for Weighted Matching. In: Dediu A.H., Ionescu A.M., Martín-Vide C. (eds) Language and Automata Theory and Applications. LATA 2009. Lecture Notes in Computer Science, vol 5457. Springer, Berlin, Heidelberg
Position Weight Matrices are broadly used probabilistic motif models. In this paper, we address the problem of identifying and characterizing potential overlaps between occurrences of such a motif. It has useful applications to the statistics of the number of occurrences, and to weighted pattern matching with an extension of the well-known Knuth-Morris-Pratt algorithm.
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