WebQUAST: online evaluation of genome assemblies-Reference-Cited by-同舟云学术

WebQUAST: online evaluation of genome assemblies

Published:2023-05-17 Issue:W1 Volume:51 Page:W601-W606
ISSN:0305-1048
Container-title:Nucleic Acids Research
language:en
Short-container-title:

Author:

Mikheenko Alla¹^ORCID,Saveliev Vladislav²³^ORCID,Hirsch Pascal⁴^ORCID,Gurevich Alexey⁵⁶^ORCID

Affiliation:

1. Department of Neuromuscular Diseases, UCL Queen Square Institute of Neurology, University College London , London WC1E 6BT, UK

2. Centre for Population Genomics, Garvan Institute of Medical Research and UNSW Sydney , Sydney, New South Wales 2010, Australia

3. Centre for Population Genomics, Murdoch Children’s Research Institute , Melbourne, Victoria 3052, Australia

4. Chair for Clinical Bioinformatics, Saarland University , Saarbrücken 66123, Germany

5. Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research , Saarbrücken 66123, Germany

6. Department of Computer Science, Saarland University , Saarbrücken 66123, Germany

Abstract

AbstractSelecting proper genome assembly is key for downstream analysis in genomics studies. However, the availability of many genome assembly tools and the huge variety of their running parameters challenge this task. The existing online evaluation tools are limited to specific taxa or provide just a one-sided view on the assembly quality. We present WebQUAST, a web server for multifaceted quality assessment and comparison of genome assemblies based on the state-of-the-art QUAST tool. The server is freely available at https://www.ccb.uni-saarland.de/quast/. WebQUAST can handle an unlimited number of genome assemblies and evaluate them against a user-provided or pre-loaded reference genome or in a completely reference-free fashion. We demonstrate key WebQUAST features in three common evaluation scenarios: assembly of an unknown species, a model organism, and a close variant of it.

Funder

Helmholtz Centre for Infection Research

Publisher

Oxford University Press (OUP)

Subject

Genetics

Link

https://academic.oup.com/nar/article-pdf/51/W1/W601/50737028/gkad406.pdf

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