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MetaQUAST: Quality Assessment Tool for Metagenome Assemblies

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MetaQUAST evaluates and compares metagenome assemblies based on alignments to close references. It is based on QUAST genome quality assessment tool, but addresses features specific for metagenome datasets:
  • Huge species diversity – the tool accepts multiple references and makes multi-genome tables and plots, including Krona charts.
  • Commonly unknown species content – the tool automatically detects and downloads reference sequences from NCBI.
  • Presence of highly relative genomes – the tool detects chimeric contigs and reports "interspecies misassemblies" in addition to the regular assembly errors types. 
MetaQUAST can be fed with multiple assemblies, thus is perfect for comparison.
MetaQUAST is distributed within QUAST package since version 2.2.


GitHub     Full manual (MetaQUAST specific sections: running, output description)

Paper at Bioinformatics journal


Alla Mikheenko, Vladislav Saveliev, Alexey Gurevich,
MetaQUAST: evaluation of metagenome assemblies,
Bioinformatics (2016) 32 (7): 1088-1090.
First published online: November 26, 2015

Citation of other formats

Examples of comparison of 4 assemblers on 3 datasets generated with MetaQUAST v3.2:

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