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24-hour genome: end-to-end workflow from blood to analysis

This protocol aims to rapidly produce libraries with a read N50 of ~30 kb and generate ≥30x coverage of the genome, thereby providing sufficient data to robustly call small and ...

Hereditary cancer panel (HCP)

This is an end-to-end method outlining sample extraction, library preparation, sequencing, and data analysis.

Chromatin accessibility know-how document

Chromatin accessibility know-how document | Welcome to Oxford Nanopore technologies. Our goal is to enable the analysis of any living thing, by any person, in any environment

wf-transcriptomes

Brief Description, Introduction, Compute Requirements, Install And Run, Related Protocols, Input Example, Input Parameters, Input Options, Output Options, Sample Options, Options for reference-based workflow, Differential Expression Options, Advanced Options, Outputs, Pipeline Overview, 1. Concatenate input files and generate per read stats., 2. Preprocess cDNA., 3. Build transcriptome., 3.1 Align reads

wf-transcriptome-de

Header, Workflow template, Intro, Introduction, Links, Useful links, Quickstart, Quickstart, Last updated: 4/7/2025, Getting started, Quick links, About Oxford Nanopore

wf-tb-amr

wf-tb-amr is a workflow for determining the antibiotic resistance of Mycobacterium tuberculosis targeted sequencing samples.

wf-somatic-variation

This workflow calls variants from the alignment files of a paired tumor/normal sample.

wf-single-cell

This workflow extracts cell barcodes and UMIs from 10x-generated single cell libraries. It was initially created as a Nextflow port of Sockeye.

wf-pore-c

Brief Description, Introduction, Compute Requirements, Install And Run, Related Protocols, Input Example, Input Parameters, Input Options, Output Options, Advanced Options, Pore-C Tools Options, Chromunity Options, 4DN files Options, Paired-end BAM Options, Outputs, Pipeline Overview, 1. Concatenate input files and generate per read stats., 2. Index reference, 3. Split input file,

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