Homopolish: a method for the removal of systematic errors in nanopore sequencing by homologous polishing.
Genome Biol
; 22(1): 95, 2021 03 31.
Article
em En
| MEDLINE
| ID: mdl-33789731
ABSTRACT
Nanopore sequencing has been widely used for the reconstruction of microbial genomes. Owing to higher error rates, errors on the genome are corrected via neural networks trained by Nanopore reads. However, the systematic errors usually remain uncorrected. This paper designs a model that is trained by homologous sequences for the correction of Nanopore systematic errors. The developed program, Homopolish, outperforms Medaka and HELEN in bacteria, viruses, fungi, and metagenomic datasets. When combined with Medaka/HELEN, the genome quality can exceed Q50 on R9.4 flow cells. We show that Nanopore-only sequencing can produce high-quality microbial genomes sufficient for downstream analysis.
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Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Análise de Sequência de DNA
/
Biologia Computacional
/
Genômica
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Sequenciamento por Nanoporos
Tipo de estudo:
Prognostic_studies
Idioma:
En
Revista:
Genome Biol
Ano de publicação:
2021
Tipo de documento:
Article