Algorithms and Applications: Essays Dedicated to Esko by Amihood Amir, Avivit Levy (auth.), Tapio Elomaa, Heikki

By Amihood Amir, Avivit Levy (auth.), Tapio Elomaa, Heikki Mannila, Pekka Orponen (eds.)

For a long time Esko Ukkonen has performed an enormous position within the development of computing device technology in Finland. He was once the foremost individual within the improvement of the varsity of algorithmic learn and has contributed significantly to post-graduate schooling in his state. Esko Ukkonen has through the years labored inside many parts of machine technological know-how, together with numerical equipment, complexity concept, theoretical facets of compiler development, and common sense programming. notwithstanding, the focus of his examine has been on algorithms and their functions. This Festschrift quantity, released to honor Esko Ukkonen on his sixtieth birthday, contains 18 refereed contributions through his former PhD scholars and associates, with whom he has cooperated heavily through the process his profession. The Festschrift was once awarded to Esko in the course of a festive symposium equipped on the college of Helsinki to have fun his birthday. The essays essentially current learn on computational development matching and string algorithms, components that experience benefited considerably from the paintings of Esko Ukonen.

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Extra info for Algorithms and Applications: Essays Dedicated to Esko Ukkonen on the Occasion of His 60th Birthday

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We begin by formally defining the faulty bits distance problem. Problem Definition. Let Σ be a finite alphabet. Let P, T ∈ Σ m be two strings of length m, such that P is the query string and T is the stored string. Denote P = p[0]p[1] · · · p[m − 1] and similarly for T . Consider F ⊆ {0, . . , log m − 1}, and suppose that the address bits carrying bits in the set F are faulty. We now formulate the criterion that determines if the stored string T matches the query string P , assuming that the bits of F are faulty.

In [7] the following results were proved: – For pattern and text of size m, the flipped bits problem can be solved in O(m log m) steps. – For pattern and text of size m, the faulty bits problem can be solved deterministically in O(mlog2 3 |Σ|) steps and randomly in O(m log m) steps. – For pattern and text of size m, the faulty bits problem can be deterministimlog 3 cally approximated to a constant c > 1 in O(|Σ| log c−1 m ). String Rearrangement Metrics: A Survey 27 – For text and pattern of sizes n and m, respectively, m power of 2, the faulty bits problem can be solved deterministically in O(|Σ|nmlog m) steps.

Springer, Berlin (1985) 2. : Fast algorithms for computing sequence distances by exhaustive substring composition. Algorithms for Molecular Biology 3 (2008) 3. : Efficient tools for comparative substring analysis (submitted, 2009) 4. : A measure of the similarity of sets of sequences not requiring sequence alignment. Proceedings of the National Academy of Sciences, 5155–5159 (1986) 5. : The smallest automaton recognizing the subwords of a text. Theor. Comput. Sci. 40, 31–55 (1985) 6. : Science and Information Theory.

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