GABAC : An arithmetic coding solution for genomic data

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Voges, J.; Paridaens, T.; Müntefering, F.; Mainzer, L.S.; Bliss, B. et al.: GABAC : An arithmetic coding solution for genomic data. In: Bioinformatics 36 (2020), Nr. 7, S. 2275-2277. DOI: https://doi.org/10.1093/bioinformatics/btz922

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Sum total of downloads: 40




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Motivation: In an effort to provide a response to the ever-expanding generation of genomic data, the International Organization for Standardization (ISO) is designing a new solution for the representation, compression and management of genomic sequencing data: the Moving Picture Experts Group (MPEG)-G standard. This paper discusses the first implementation of an MPEG-G compliant entropy codec: GABAC. GABAC combines proven coding technologies, such as context-adaptive binary arithmetic coding, binarization schemes and transformations, into a straightforward solution for the compression of sequencing data. Results: We demonstrate that GABAC outperforms well-established (entropy) codecs in a significant set of cases and thus can serve as an extension for existing genomic compression solutions, such as CRAM. © 2019 The Author(s). Published by Oxford University Press.
License of this version: CC BY-NC 4.0 Unported
Document Type: article
Publishing status: publishedVersion
Issue Date: 2020
Appears in Collections:Fakultät für Elektrotechnik und Informatik

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pos. country downloads
total perc.
1 image of flag of Germany Germany 28 70.00%
2 image of flag of China China 3 7.50%
3 image of flag of United States United States 2 5.00%
4 image of flag of Russian Federation Russian Federation 2 5.00%
5 image of flag of Taiwan Taiwan 1 2.50%
6 image of flag of Singapore Singapore 1 2.50%
7 image of flag of India India 1 2.50%
8 image of flag of United Kingdom United Kingdom 1 2.50%
9 image of flag of United Arab Emirates United Arab Emirates 1 2.50%

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