When the levee breaks: a practical guide to sketching algorithms for processing the flood of genomic data

Considerable advances in genomics over the past decade have resulted in vast amounts of data being generated and deposited in global archives. The growth of these archives exceeds our ability to process their content, leading to significant analysis bottlenecks. Sketching algorithms produce small, a...

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Vydáno v:Genome Biology Ročník 20; číslo 1; s. 199
Hlavní autor: Rowe, Will P. M.
Médium: Journal Article
Jazyk:angličtina
Vydáno: London BioMed Central 13.09.2019
Springer Nature B.V
BMC
Témata:
Algorithms
Animal Genetics and Genomics
Bioinformatics
Biomedical and Life Sciences
Data Compression
Data processing
Evolutionary Biology
fields
floods
genome
Genomes
Genomics
Genomics - methods
Human Genetics
Life Sciences
Microbial Genetics and Genomics
Plant Genetics and Genomics
Researchers
Review
Software
Streaming media
utilities
United Kingdom > UK
ISSN:1474-760X, 1474-7596, 1474-760X
On-line přístup:Získat plný text
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Shrnutí:Considerable advances in genomics over the past decade have resulted in vast amounts of data being generated and deposited in global archives. The growth of these archives exceeds our ability to process their content, leading to significant analysis bottlenecks. Sketching algorithms produce small, approximate summaries of data and have shown great utility in tackling this flood of genomic data, while using minimal compute resources. This article reviews the current state of the field, focusing on how the algorithms work and how genomicists can utilize them effectively. References to interactive workbooks for explaining concepts and demonstrating workflows are included at https://github.com/will-rowe/genome-sketching .
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ISSN:1474-760X
1474-7596
1474-760X
DOI:10.1186/s13059-019-1809-x