TY - JOUR

T1 - Fully incremental LCS computation

AU - Ishida, Yusuke

AU - Inenaga, Shunsuke

AU - Shinohara, Ayumi

AU - Takeda, Masayuki

PY - 2005

Y1 - 2005

N2 - Sequence comparison is & fundamental task in pattern matching. Its applications include file comparison, spelling correction, information retrieval, and computing (dis)similarities between biological sequences. A common scheme for sequence comparison is the longest common subsequence (LCS) metric. This paper considers the fully incremental LCS computation problem as follows: For any strings A, B and characters a, b, compute LCS(aA, B), LCS(A, bB), LCS(Aa, B), and LCS(A, Bb), provided that L = LCS(A, B) is already computed. We present an efficient algorithm that computes the four LCS values above, in O(L) or O(n) time depending on where a new character is added, where n is the length of A. Our algorithm is superior in both time and space complexities to the previous known methods.

AB - Sequence comparison is & fundamental task in pattern matching. Its applications include file comparison, spelling correction, information retrieval, and computing (dis)similarities between biological sequences. A common scheme for sequence comparison is the longest common subsequence (LCS) metric. This paper considers the fully incremental LCS computation problem as follows: For any strings A, B and characters a, b, compute LCS(aA, B), LCS(A, bB), LCS(Aa, B), and LCS(A, Bb), provided that L = LCS(A, B) is already computed. We present an efficient algorithm that computes the four LCS values above, in O(L) or O(n) time depending on where a new character is added, where n is the length of A. Our algorithm is superior in both time and space complexities to the previous known methods.

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U2 - 10.1007/11537311_49

DO - 10.1007/11537311_49

M3 - Conference article

AN - SCOPUS:26844489395

SN - 0302-9743

VL - 3623

SP - 563

EP - 574

JO - Lecture Notes in Computer Science

JF - Lecture Notes in Computer Science

T2 - 15th International Symposium on Fundamentals of Computation Theory, FCT 2005

Y2 - 17 August 2005 through 20 August 2005

ER -