Crumble: reference free lossy compression of sequence quality values

被引：18

作者：

Bonfield, James K. ^{[1
]}

McCarthy, Shane A. ^{[1
,2
]}

Durbin, Richard ^{[1
,2
]}

机构：

[1] DNA Pipelines, Wellcome Sanger Inst, Wellcome Genome Campus, Hinxton CB10 1SA, England

[2] Univ Cambridge, Dept Genet, Cambridge CB2 3EH, England

来源：

BIOINFORMATICS | 2019年 / 35卷 / 02期

基金：

英国惠康基金;

关键词：

D O I：

10.1093/bioinformatics/bty608

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Motivation: The bulk of space taken up by NGS sequencing CRAM files consists of per-base quality values. Most of these are unnecessary for variant calling, offering an opportunity for space saving. Results: On the Syndip test set, a 17 fold reduction in the quality storage portion of a CRAM file can be achieved while maintaining variant calling accuracy. The size reduction of an entire CRAM file varied from 2.2 to 7.4 fold, depending on the non-quality content of the original file (see Supplementary Material S6 for details).

引用

页码：337 / 339

页数：3

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