Libin PJK, Deforche K, Abecasis AB, Theys K. VIRULIGN: fast codon-correct alignment and annotation of viral genomes.
Bioinformatics 2020;
35:1763-1765. [PMID:
30295730 PMCID:
PMC6513156 DOI:
10.1093/bioinformatics/bty851]
[Citation(s) in RCA: 37] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2018] [Revised: 09/24/2018] [Accepted: 10/05/2018] [Indexed: 12/11/2022] Open
Abstract
Summary
Virus sequence data are an essential resource for reconstructing spatiotemporal dynamics of viral spread as well as to inform treatment and prevention strategies. However, the potential benefit of these applications critically depends on accurate and correctly annotated alignments of genetically heterogeneous data. VIRULIGN was built for fast codon-correct alignments of large datasets, with standardized and formalized genome annotation and various alignment export formats.
Availability and implementation
VIRULIGN is freely available at https://github.com/rega-cev/virulign as an open source software project.
Supplementary information
Supplementary data is available at Bioinformatics online.
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