Dataset Information
MetaShot: an accurate workflow for taxon classification of host-associated microbiome from shotgun metagenomic data.
Ontology highlight
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.
SUBMITTER: Fosso B
PROVIDER: S-EPMC5447231 | biostudies-literature | 2017 Jun
REPOSITORIES: biostudies-literature
Publications
MetaShot: an accurate workflow for taxon classification of host-associated microbiome from shotgun metagenomic data.
Bioinformatics (Oxford, England) 20170601 11
<h4>Summary</h4>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 ...[more]