文献类型： 会议论文
第一作者： U. Ozturk
作者： U. Ozturk 1 ; S. Casale-Brunet 1 ; P. Ribeca 2 ; M. Mattavelli 1 ;
作者机构： 1.EPFL SCI STI MM, école Polytechnique Fédérale de Lausanne, Switzerland
2.Biomathematics and Statistics Scotland, United Kingdom
关键词： Sequential analysis;ISO Standards;Pipelines;Genomics;Transform coding;Big Data;Compressors
会议名称： Data Compression Conference
主办单位：
页码： 478-478
摘要： With the widespread application of next generation sequencing technologies, the volume of sequencing data became comparable to that of big data domains. The compression of sequencing reads (nucleotide sequences, quality values, read names), in both raw and aligned data, is a way to alleviate bandwidth, transfer, and storage requirements of genomics pipelines. ISO/IEC MPEG-G standardizes the compressed representation (i.e. storage and streaming) of structured, indexed sets of genomic sequencing data for both raw and aligned data. For the latter, reference-based compression is a strategy used to compress nucleotide sequences of sequencing reads by using alignment information to a reference sequence, which can be used to represent nucleotide sequences by storing the starting position of the alignment on the reference sequence, and the differences between the reference and the actual read. This general scheme is implemented in different ways by genomic data compressors, such as DeeZ, Quip, and CRAM, which apply to aligned reads.
分类号： tp311.56-53
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A Benchmark of Entropy Coders for the Compression of Genome Sequencing Data
作者：S. Casale-Brunet;P. Ribeca;C. Alberti;U. Ozturk;M. Mattavelli
关键词：Sequential analysis;ISO Standards;Transform coding;Symbols;Genomics;Benchmark testing;Entropy
