Products

All products

Consumables

Services
MinION GridION PromethION 2 & 2 Solo PromethION 24 & 48 Flongle VolTRAX Q-Line

Consumables

Flow cells Manual & automated library prep

Services

Certification Training Device warranty
Applications

Nanopore sequencing offers advantages in all areas of research. Our offering includes DNA sequencing, as well as RNA and gene expression analysis and future technology for analysing proteins.

Learn about applications

Research areas

Investigations

Techniques

Research areas

Microbiology Human genetics Microbiome Clinical research Cancer Plant Transcriptome Animal Population genomics COVID-19 Environmental research & conservation Infectious disease

Investigations

Structural variation SNVs and phasing Gene expression Identification Splice variation Assembly Fusion transcripts Epigenetics Single cell Chromatin conformation

Techniques

Whole genome Targeted Whole transcriptome Metagenomics Short fragment mode View all Applications
Store Resources Support

Support & documentation

Learning

Support & documentation

Getting Started FAQs Nanopore Community Documentation Software downloads Library prep protocols Extraction protocols

Learning

Nanopore Learning How nanopore technology works Sample preparation Basecalling & analysis
About

Company

News & Events

Global partners

About

About us Board members Executive team Investor centre Company history Sustainability Careers Media resources

News & Events

News Events Blogs

Global partners

Global distributors Japanese dealers Sequencing service providers For partners

London Calling 2023

17th - 19th May
Watch on demand
Get started Talk to us Subscribe
Support

Data analysis: for all levels of expertise

We provide a wide range of tools to support nanopore data analysis. From end-to-end analysis workflows in EPI2ME to the latest cutting-edge tools to make the most of your sequencing runs.
Overview

Data analysis analysis for all levels of expertise

Data analysis analysis for all levels of expertise

Subscribe Get started Talk to us

Who are you?

Scientist

  • Preconfigured workflows
  • No bioinformatics skills needed
  • Fully supported

EPI2ME solutions
Bioinformatician

  • Access our latest tools
  • Integrate your workflows
  • Explore community tools

Command-line tools

MinKNOW: intuitive software native to all platforms

  • Performs raw data acquisition, basecalling, and demultiplexing in real time or post run
  • Built-in methylation detection
  • Enables in silico targeted sequencing with adaptive sampling
  • Can be connected to up- and downstream tools with MinKNOW API
Get started
Intuitive software native to all platforms

End-to-end analysis workflows with EPI2ME solutions

  • Preconfigured workflows for data analysis
  • EPI2ME solutions are available as cloud or locally installed software
  • Start with sequencing data and get a detailed report
  • Choose between real-time or post-run analysis
  • Intuitive interface
Learn more

Cutting-edge analysis with the latest tools

  • Explore the latest tools and algorithms on our GitHub repositories
  • From basecallers to end-to-end workflows
  • Ready for integration into your custom pipelines
  • Command-line experience required
Learn more

Find the latest tools in the Oxford Nanopore repository

 

 

Find all our analysis workflows in the EPI2ME Labs repository
EPI2ME solutions

Data analysis analysis for all levels of expertise

Data analysis analysis for all levels of expertise

Subscribe Get started Talk to us

Data analysis for everyone: EPI2ME solutions​

  • Intuitive interface, seamless experience​
  • Run preconfigured workflows for rapid insights​
  • No bioinformatics experience required
  • Run in the cloud or locally, on your laptop or preferred machine set-up​
  • Choose between real-time or post-run analysis​
  • Keep ownership of your data from sample to answer​ ​ ​
POINT AND CLICK TOOLS

EPI2ME: real-time data analysis in the cloud​ ​ ​

  • Interactive reports in the browser — shareable and printable​
  • No need for local computing capabilities or server access​
  • Install only the EPI2ME Agent software for data upload​
  • Access as a Nanopore Community member from the intuitive interface or the command line​ ​ ​

EPI2ME Labs: an open analysis platform

  • Standalone desktop application
  • Pre-packaged with >10 open-source workflows (Nextflow framework)
  • Compatible with Windows, macOS, and Linux
  • Install on laptop, desktop computer, cluster or cloud service, PromethION, or GridION
  • Free access from the intuitive interface or the command line
EPI2ME Labs: an open analysis platform

Examples of analysis workflows available

EPI2ME

  • Metagenomics classification
  • 16S classification
  • Alignment to reference
  • Clone validation
  • SARS-CoV-2 genome
  • And more

EPI2ME Labs

  • Human variation: structural variants, SNVs and methylation
  • Bacterial genomes
  • Cas9 enrichment
  • Single cell
  • Transcriptomics
  • And more

Choose the right tool for you: in the cloud or on your computer?

 

Location

 Cloud-based Local or distributed (laptop,sequencing device, cluster, or cloud)
Analysis Real time and post run (all workflows) Post run and real time (for selected workflows)
Configurability Highly preconfigured Preconfigured with more flexible options
Resource needed Any laptop with good internet connection Computational requirements depend on dataset and analysis
Reporting Interactive, simplified, sharable reports Detailed output, shareable reports
Software EPI2ME Agent EPI2ME Labs, Docker
Bioinformatics expertise None EPI2ME, Docker
Graphical interface Yes Yes
Command-line interface Yes Yes
 

Download EPI2ME

Download EPI2ME Labs
Command-line tools

Data analysis analysis for all levels of expertise: Command line tools

Data analysis analysis for all levels of expertise: Command line tools

Subscribe Get started Talk to us

Download the latest tools from Oxford Nanopore Technologies

  • Available on the Oxford Nanopore GitHub repository
  • From the latest basecallers to newly developed research tools
  • Ready for your custom pipelines
  • Command-line experience required

Find the latest tools in the Oxford Nanopore repository

Find all our analysis workflows in the EPI2ME Labs repository

 

 

Oxford Nanopore Open Datasets

New to Oxford Nanopore data? Get started with our end-to-end analysis workflows

  • EPI2ME Labs workflows are available from the command line and from the graphical user interface
  • Implemented using Nextflow according to the nf-core schema and code is deposited in to GitHub
  • GitHub command-line execution allows:
    • Workflows to be managed automatically with finer control of parameters
    • Greater control over computational resources
    • Jobs to be run on servers, clusters, and the cloud

Access EPI2ME workflows in the cloud from the command line

  • Command-line control over cloud-based bioinformatics workflows
  • No need for local computing capabilities or server access
  • Real-time upload and analysis
  • Reports available through EPI2ME website
  • Access as a Nanopore Community member
Access EPI2ME workflows in the cloud.png
Explore user-developed tools and algorithms

Explore user-developed tools and algorithms

  • Developed by the Nanopore Community
  • Tailored to Oxford Nanopore data
  • Common tools: demultiplexing, filtering, mapping, assembling, variant calling, etc
  • Application-specific tools: bacterial genome assembly, SARS-CoV-2 monitoring, hepatitis C genome sequencing, mitochondrial DNA haplogroup classification, novel pathogen detection, transposon insertion identification, etc
  • Extended functionality: visualisation tools for methylated data, RNA methylation prediction, barcode aware adaptive sampling