TY - GEN
T1 - Fast relative Lempel-Ziv self-index for similar sequences
AU - Do, Huy Hoang
AU - Jansson, Jesper Andreas
AU - Sadakane, Kunihiko
AU - Sung, Wing Kin
PY - 2012/5/23
Y1 - 2012/5/23
N2 - Recent advances in biotechnology and web technology are generating huge collections of similar strings. People now face the problem of storing them compactly while supporting fast pattern searching. One compression scheme called relative Lempel-Ziv compression uses textual substitutions from a reference text as follows: Given a (large) set S of strings, represent each string in S as a concatenation of substrings from a reference string R. This basic scheme gives a good compression ratio when every string in S is similar to R, but does not provide any pattern searching functionality. Here, we describe a new data structure that supports fast pattern searching.
AB - Recent advances in biotechnology and web technology are generating huge collections of similar strings. People now face the problem of storing them compactly while supporting fast pattern searching. One compression scheme called relative Lempel-Ziv compression uses textual substitutions from a reference text as follows: Given a (large) set S of strings, represent each string in S as a concatenation of substrings from a reference string R. This basic scheme gives a good compression ratio when every string in S is similar to R, but does not provide any pattern searching functionality. Here, we describe a new data structure that supports fast pattern searching.
UR - http://www.scopus.com/inward/record.url?scp=84861205393&partnerID=8YFLogxK
U2 - 10.1007/978-3-642-29700-7_27
DO - 10.1007/978-3-642-29700-7_27
M3 - Conference article published in proceeding or book
SN - 9783642296994
T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
SP - 291
EP - 302
BT - Frontiers in Algorithmics and Algorithmic Aspects in Information and Management - Joint International Conference, FAW-AAIM 2012, Proceedings
T2 - 6th International Frontiers of Algorithmics Workshop, FAW 2012 and 8th International Conference on Algorithmic Aspects of Information and Management, AAIM 2012
Y2 - 14 May 2012 through 16 May 2012
ER -