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A proposed metric set for evaluation of genome assembly quality

文献类型： 外文期刊

作者： Wang, Peng 1 ; Wang, Fei 2 ;

作者机构： 1.Chinese Acad Trop Agr Sci, Inst Trop Crop Genet Resources, Key Lab Crop Gene Resources & Germplasm Enhancemen, Minist Agr & Rural Affairs, 4 Xueyuan Rd, Haikou 571101, Hainan, Peoples R China

2.Shanghai Inst Technol, Sch Elect & Elect Engn, 100 Haiquan Rd, Shanghai 201416, Peoples R China

期刊名称：TRENDS IN GENETICS （ 影响因子：11.4； 五年影响因子：12.1 ）

ISSN： 0168-9525

年卷期： 2023 年 39 卷 3 期

页码：

收录情况： SCI

摘要： Quality control is essential for genome assemblies; however, a consensus has yet to be reached on what metrics should be adopted for the evaluation of assembly quality. N50 is widely used for contiguity measurement, but its effec-tiveness is constantly in question. Prevailing metrics for the completeness evaluation focus on gene space, yet challenging areas such as tandem repeats are commonly overlooked. Achieving correctness has become an indispensable dimension for quality control, while prevailing assembly releases lack scores reflecting this aspect. We propose a metric set with a set of statistic indexes for effective, comprehensive evaluation of assemblies and provide a score of a finished assembly for each metric, which can be utilized as a benchmark for achieving high-quality genome assemblies.

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