Genome Detective: an automated system for virus identification from high-throughput sequencing data

SUMMARY: Genome Detective is an easy to use web-based software application that assembles the genomes of viruses quickly and accurately. The application uses a novel alignment method that constructs genomes by reference-based linking of de novo contigs by combining amino-acids and nucleotide scores....

Descripción completa

Detalles Bibliográficos
Autores principales: Vilsker, Michael, Moosa, Yumna, Nooij, Sam, Fonseca, Vagner, Ghysens, Yoika, Dumon, Korneel, Pauwels, Raf, Alcantara, Luiz Carlos, Vanden Eynden, Ewout, Vandamme, Anne-Mieke, Deforche, Koen, de Oliveira, Tulio
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6524403/
https://www.ncbi.nlm.nih.gov/pubmed/30124794
http://dx.doi.org/10.1093/bioinformatics/bty695
Descripción
Sumario:SUMMARY: Genome Detective is an easy to use web-based software application that assembles the genomes of viruses quickly and accurately. The application uses a novel alignment method that constructs genomes by reference-based linking of de novo contigs by combining amino-acids and nucleotide scores. The software was optimized using synthetic datasets to represent the great diversity of virus genomes. The application was then validated with next generation sequencing data of hundreds of viruses. User time is minimal and it is limited to the time required to upload the data. AVAILABILITY AND IMPLEMENTATION: Available online: http://www.genomedetective.com/app/typingtool/virus/. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Ejemplares similares