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Minimal perfect hash functions in large scale bioinformatics Problem

Authors: Limasset, Antoine; Marchet, Camille; Peterlongo, Pierre; Bittner, Lucie;

Minimal perfect hash functions in large scale bioinformatics Problem

Abstract

. Genomic and metagenomic fields, generating huge sets ofshort genomic sequences, brought their own share of high performanceproblems. To extract relevant pieces of information from the huge datasets generated by current sequencing techniques, one must rely on extremelyscalable methods and solutions. Indexing billions of objects isa task considered too expensive while being a fundamental need in thisfield. In this paper we propose a straightforward indexing structure thatscales to billions of element and we propose two direct applications ingenomics and metagenomics. We show that our proposal solves probleminstances for which no other known solution scales-up. We believe thatmany tools and applications could benefit from either the fundamentaldata structure we provide or from the applications developed from thisstructure.

Country
France
Keywords

[INFO.INFO-DS] Computer Science [cs]/Data Structures and Algorithms [cs.DS], [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM]

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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!
0
Average
Average
Average
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