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FCCM
2011
IEEE
311views VLSI» more  FCCM 2011»
14 years 7 months ago
String Matching in Hardware Using the FM-Index
—String matching is a ubiquitous problem that arises in a wide range of applications in computing, e.g., packet routing, intrusion detection, web querying, and genome analysis. D...
Edward Fernandez, Walid Najjar, Stefano Lonardi
IFIPTCS
2000
15 years 7 months ago
An Index for Two Dimensional String Matching Allowing Rotations
We present an index to search a two-dimensional pattern of size m m in a two-dimensional text of size n n, even when the pattern appears rotated in the text. The index is based on ...
Kimmo Fredriksson, Gonzalo Navarro, Esko Ukkonen
SOFSEM
2007
Springer
15 years 10 months ago
Fast Approximate Point Set Matching for Information Retrieval
We investigate randomised algorithms for subset matching with spatial point sets—given two sets of d-dimensional points: a data set T consisting of n points and a pattern P consi...
Raphaël Clifford, Benjamin Sach
FCT
2003
Springer
15 years 9 months ago
Complexity of Approximating Closest Substring Problems
The closest substring problem, where a short string is sought that minimizes the number of mismatches between it and each of a given set of strings, is a minimization problem with ...
Patricia A. Evans, Andrew D. Smith
SIGMOD
2011
ACM
150views Database» more  SIGMOD 2011»
14 years 6 months ago
WHAM: a high-throughput sequence alignment method
Over the last decade the cost of producing genomic sequences has dropped dramatically due to the current so called “next-gen” sequencing methods. However, these next-gen seque...
Yinan Li, Allison Terrell, Jignesh M. Patel