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WebQUAST: online evaluation of genome assemblies
Alla Mikheenko1, Vladislav Saveliev2,3, Pascal Hirsch4
1Department of Neuromuscular Diseases, UCL Queen Square Institute of Neurology, University College London, London WC1E 6BT, UK.
Nucleic Acids Research
|May 17, 2023
Summary
WebQUAST offers a comprehensive web server for evaluating genome assemblies. It provides multifaceted quality assessment and comparison, supporting reference-based and reference-free analyses for diverse genomics studies.
Area of Science:
- Genomics
- Bioinformatics
- Computational Biology
Background:
- Selecting appropriate genome assembly tools is crucial for accurate downstream genomic analysis.
- Numerous assembly tools and parameters complicate the selection process.
- Existing online evaluation tools have limitations in scope and perspective.
Purpose of the Study:
- To introduce WebQUAST, a web server for comprehensive genome assembly quality assessment and comparison.
- To provide a user-friendly platform based on the QUAST tool for evaluating multiple assemblies.
- To enable both reference-based and reference-free assembly evaluations.
Main Methods:
- Developed WebQUAST as a web server utilizing the QUAST tool.
- Implemented functionality to handle unlimited genome assemblies.
- Enabled evaluation against user-provided or pre-loaded reference genomes.
- Included a reference-free evaluation mode.
Main Results:
- WebQUAST provides multifaceted quality assessment of genome assemblies.
- The server supports an unlimited number of assemblies for comparison.
- It can perform evaluations with or without a reference genome.
- Demonstrated utility in scenarios involving unknown species, model organisms, and variants.
Conclusions:
- WebQUAST enhances genome assembly evaluation by offering a versatile and scalable solution.
- The tool addresses limitations of existing evaluation methods.
- It facilitates robust quality assessment for various genomics research applications.
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