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      QUAST: quality assessment tool for genome assemblies

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      Bioinformatics
      Oxford University Press (OUP)

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          Abstract

          Limitations of genome sequencing techniques have led to dozens of assembly algorithms, none of which is perfect. A number of methods for comparing assemblers have been developed, but none is yet a recognized benchmark. Further, most existing methods for comparing assemblies are only applicable to new assemblies of finished genomes; the problem of evaluating assemblies of previously unsequenced species has not been adequately considered. Here, we present QUAST-a quality assessment tool for evaluating and comparing genome assemblies. This tool improves on leading assembly comparison software with new ideas and quality metrics. QUAST can evaluate assemblies both with a reference genome, as well as without a reference. QUAST produces many reports, summary tables and plots to help scientists in their research and in their publications. In this study, we used QUAST to compare several genome assemblers on three datasets. QUAST tables and plots for all of them are available in the Supplementary Material, and interactive versions of these reports are on the QUAST website. http://bioinf.spbau.ru/quast . Supplementary data are available at Bioinformatics online.

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          Author and article information

          Journal
          Bioinformatics
          Oxford University Press (OUP)
          1460-2059
          1367-4803
          April 15 2013
          April 15 2013
          February 19 2013
          April 15 2013
          April 15 2013
          February 19 2013
          : 29
          : 8
          : 1072-1075
          Article
          10.1093/bioinformatics/btt086
          3624806
          23422339
          bd2bacbe-dd54-4125-abed-5c4fa9463f64
          © 2013
          History

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