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Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies
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Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies
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Journal Article
Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies
2020
Overview
Recent long-read assemblies often exceed the quality and completeness of available reference genomes, making validation challenging. Here we present Merqury, a novel tool for reference-free assembly evaluation based on efficient k-mer set operations. By comparing k-mers in a de novo assembly to those found in unassembled high-accuracy reads, Merqury estimates base-level accuracy and completeness. For trios, Merqury can also evaluate haplotype-specific accuracy, completeness, phase block continuity, and switch errors. Multiple visualizations, such as k-mer spectrum plots, can be generated for evaluation. We demonstrate on both human and plant genomes that Merqury is a fast and robust method for assembly validation.
Publisher
BioMed Central,Springer Nature B.V,BMC
Subject
