Felicioli, C. (2004) Fast calculation of a segment mutation distance between long sequences. Technical Report del Dipartimento di Informatica . Università di Pisa, Pisa, IT.
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Abstract
BpMatch is a new algorithm whose function is to efficiently calculate, from sequences S and T, the maximum coverage of T using only subsequences and complemented reversed subsequences of S, with minimum length l, possibly overlapped, and, in such a maximum coverage, to minimize the number of subsequences used. The problem is solved by executing a preelaboration of S (independently from the sequence on which a maximum coverage will be later looked for, and therefore executed only once for any target sequence T), generating a graph which allows a fast recognizing of S's subsequences. Graphs G and G' must be generated from S and complemented reversed S, then, using G, G' and T, calculus of the maximum coverage can be computed in linear space and time.
Item Type: | Book |
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Uncontrolled Keywords: | Sequence distance, segment mutation, computational biology, analysis of algorithms |
Subjects: | Area01 - Scienze matematiche e informatiche > INF/01 - Informatica |
Divisions: | Dipartimenti (until 2012) > DIPARTIMENTO DI INFORMATICA |
Depositing User: | dott.ssa Sandra Faita |
Date Deposited: | 09 Dec 2014 10:48 |
Last Modified: | 09 Dec 2014 10:48 |
URI: | http://eprints.adm.unipi.it/id/eprint/2120 |
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