Results 1 to 10 of about 58,956 (207)
Algorithms, 2018 We consider a sliding window W over a stream of characters from some alphabet of constant size. We want to look up a pattern in the current sliding window content and obtain all positions of the matches.
Andrej Brodnik, Matevž Jekovec
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A suffix tree or not a suffix tree? [PDF]
Journal of Discrete Algorithms, 2014 In this paper we study the structure of suffix trees. Given an unlabeled tree τ on n nodes and suffix links of its internal nodes, we ask the question ”Is τ a suffix tree?”, i.e., is there a string S whose suffix tree has the same topological structure ...
A Apostolico +17 more
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Parallel and private generalized suffix tree construction and query on genomic data [PDF]
BMC Genomic Data, 2022 Background Several technological advancements and digitization of healthcare data have provided the scientific community with a large quantity of genomic data. Such datasets facilitated a deeper understanding of several diseases and our health in general.
Md Momin Al Aziz +2 more
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A novel linear indexing method for strings under all internal nodes in a suffix tree [PDF]
Frontiers in BioinformaticsSuffix trees are fundamental data structures in stringology and have wide applications across various domains. In this work, we propose two linear-time algorithms for indexing strings under each internal node in a suffix tree while preserving the ability
Anas Al-okaily, Abdelghani Tbakhi
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Sequence Comparison Alignment-Free Approach Based on Suffix Tree and L-Words Frequency [PDF]
The Scientific World Journal, 2012 The vast majority of methods available for sequence comparison rely on a first sequence alignment step, which requires a number of assumptions on evolutionary history and is sometimes very difficult or impossible to perform due to the abundance of gaps ...
Inês Soares, Ana Goios, António Amorim
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Weighted ancestors in suffix trees [PDF]
, 2014 The classical, ubiquitous, predecessor problem is to construct a data structure for a set of integers that supports fast predecessor queries. Its generalization to weighted trees, a.k.a.
D.E. Willard +6 more
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Practical Compressed Suffix Trees [PDF]
Algorithms, 2013 The suffix tree is an extremely important data structure in bioinformatics. Classical implementations require much space, which renders them useless to handle large sequence collections. Recent research has obtained various compressed representations for
Gonzalo Navarro +2 more
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Wavelet Trees Meet Suffix Trees [PDF]
Proceedings of the Twenty-Sixth Annual ACM-SIAM Symposium on Discrete Algorithms, 2015 We present an improved wavelet tree construction algorithm and discuss its applications to a number of rank/select problems for integer keys and strings.
Babenko, Maxim +3 more
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The suffix binary search tree and suffix AVL tree
Journal of Discrete Algorithms, 2003 zbMATH Open Web Interface contents unavailable due to conflicting licenses.
Robert W Irving
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Lecture Notes in Computer Science, 2017 The suffix tree—the compacted trie of all the suffixes of a string—is the most important and widely-used data structure in string processing. We consider a natural combinatorial question about suffix trees: for a string S of length n, how many nodes νS(d) can there be at (string) depth d in its suffix tree? We prove ν(n,d)=maxS∈ΣnνS(d) is O((n/d)logn) ,
Golnaz Badkobeh +3 more
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