Article

OCTOPUS: Disk-based, Multiplatform, Mobile-friendly Metagenomics Classifier

2024-03-15

Abstract excerpt

Portable genomic sequencers such as Oxford Nanopore’s MinION enable real-time applications in clinical and environmental health. However, there is a bottleneck in the downstream analytics when bioinformatics pipelines are unavailable, e.g., when cloud processing is unreachable due to absence of Internet connection, or only low-end computing devices can be carried on site. Here we present a platform-friendly softwa...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 7253c8c5-b51e-53f5-bc00-122c608ab2ef
DOI: 10.1101/2024.03.15.585215

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

OCTOPUS: Disk-based, Multiplatform, Mobile-friendly Metagenomics ClassifierDOI 10.1101/2024.03.15.585215Read

Closing the gap: Oxford Nanopore Technologies R10 sequencing allows comparable results to Illumina sequencing for SNP-based outbreak investigation of bacterial pathogens.Semantic proximity Read

Nanopore sequencing enables highly accurate genotyping and identification of resistance determinants in key nosocomial pathogensSemantic proximity Read

Nanopore sequencing enables highly accurate genotyping and identification of resistance determinants in key nosocomial pathogens.Semantic proximity Read

One Codex: A Sensitive and Accurate Data Platform for Genomic Microbial IdentificationSemantic proximity Read

Evaluation of Oxford Nanopore Technologies workflows for genomic epidemiology of outbreak-associated bacterial isolates in the clinical setting.Semantic proximity Read

Accurate and reproducible whole-genome genotyping for bacterial genomic surveillance with Nanopore sequencing data.Semantic proximity Read

Evaluation of Oxford Nanopore Technologies workflows for genomic epidemiology of outbreak‐associated bacterial isolates in the clinical settingSemantic proximity Read

NANOTAXI: A Shiny-Based GUI for Real-Time Classification and Analysis of 16S rRNA Nanopore ReadsSemantic proximity Read

SquiDBase: a community resource of raw nanopore data from microbesSemantic proximity Read

Single laboratory evaluation of the (Q20+) nanopore sequencing kit for bacterial outbreak investigationsSemantic proximity Read

Benchmarking Illumina and Oxford Nanopore Technologies (ONT) sequencing platforms for whole genome sequencing of bacterial genomes and use in clinical microbiologySemantic proximity Read

miniSNV: accurate and fast single nucleotide variant calling from nanopore sequencing data.Semantic proximity Read