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Algorithms
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Algorithms
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Algorithms
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Practical Compressed Suffix Trees

Practical compressed suffix trees
Authors: Andrés Abeliuk; Rodrigo Cánovas; Gonzalo Navarro 0001;

Practical Compressed Suffix Trees

Abstract

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 suffix trees, with widely different space-time tradeoffs. In this paper we show how the use of range min-max trees yields novel representations achieving practical space/time tradeoffs. In addition, we show how those trees can be modified to index highly repetitive collections, obtaining the first compressed suffix tree representation that effectively adapts to that scenario.

Related Organizations
Keywords

compressed data structures, Data structures, Industrial engineering. Management engineering, Electronic computers. Computer science, repetitive sequence collections, suffix trees, QA75.5-76.95, bioinformatics, T55.4-60.8

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    influence
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
23
Average
Top 10%
Top 10%
gold