MetaShot: an accurate workflow for taxon classification of host-associated microbiome from shotgun metagenomic data.
Bioinformatics
; 33(11): 1730-1732, 2017 Jun 01.
Article
en En
| MEDLINE
| ID: mdl-28130230
ABSTRACT
SUMMARY:
Shotgun metagenomics by high-throughput sequencing may allow deep and accurate characterization of host-associated total microbiomes, including bacteria, viruses, protists and fungi. However, the analysis of such sequencing data is still extremely challenging in terms of both overall accuracy and computational efficiency, and current methodologies show substantial variability in misclassification rate and resolution at lower taxonomic ranks or are limited to specific life domains (e.g. only bacteria). We present here MetaShot, a workflow for assessing the total microbiome composition from host-associated shotgun sequence data, and show its overall optimal accuracy performance by analyzing both simulated and real datasets. AVAILABILITY AND IMPLEMENTATION https//github.com/bfosso/MetaShot. CONTACT graziano.pesole@uniba.it. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Programas Informáticos
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Metagenómica
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Secuenciación de Nucleótidos de Alto Rendimiento
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Microbiota
Tipo de estudio:
Risk_factors_studies
Límite:
Humans
Idioma:
En
Revista:
Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2017
Tipo del documento:
Article
País de afiliación:
Italia