{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["20"],"submitter":["Rodriguez-Perez H"],"pubmed_abstract":["<h4>Background</h4>The study of microbial communities and their applications have been leveraged by advances in sequencing techniques and bioinformatics tools. The Oxford Nanopore Technologies long-read sequencing by nanopores provides a portable and cost-efficient platform for sequencing assays. While this opens the possibility of sequencing applications outside specialized environments and real-time analysis of data, complementing the existing efficient library preparation protocols with streamlined bioinformatic workflows is required.<h4>Results</h4>Here we present NanoRTax, a Nextflow pipeline for nanopore 16S rRNA gene amplicon data that features state-of-the-art taxonomic classification tools and real-time capability. The pipeline is paired with a web-based visual interface to enable"],"journal":["Computational and structural biotechnology journal"],"pagination":["5350-5354"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9522874"],"repository":["biostudies-literature"],"pubmed_title":["NanoRTax, a real-time pipeline for taxonomic and diversity analysis of nanopore 16S rRNA amplicon sequencing data."],"pmcid":["PMC9522874"],"pubmed_authors":["Ciuffreda L","Rodriguez-Perez H","Flores C"],"additional_accession":[]},"is_claimable":false,"name":"NanoRTax, a real-time pipeline for taxonomic and diversity analysis of nanopore 16S rRNA amplicon sequencing data.","description":"<h4>Background</h4>The study of microbial communities and their applications have been leveraged by advances in sequencing techniques and bioinformatics tools. The Oxford Nanopore Technologies long-read sequencing by nanopores provides a portable and cost-efficient platform for sequencing assays. While this opens the possibility of sequencing applications outside specialized environments and real-time analysis of data, complementing the existing efficient library preparation protocols with streamlined bioinformatic workflows is required.<h4>Results</h4>Here we present NanoRTax, a Nextflow pipeline for nanopore 16S rRNA gene amplicon data that features state-of-the-art taxonomic classification tools and real-time capability. The pipeline is paired with a web-based visual interface to enable","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022","modification":"2025-05-29T16:10:27.395Z","creation":"2025-04-06T19:47:04.977Z"},"accession":"S-EPMC9522874","cross_references":{"pubmed":["36212537"],"doi":["10.1016/j.csbj.2022.09.024"]}}