Trainings 2021 – ONT data analysis

Introduction to Oxford Nanopore Technology data analyses

This course offers an introduction to ONT data analysis.

It includes 5 issues: basecalling, reads quality control, assemblies and polishing/correction, contig quality and structural variants detection.


Linux and knowledge of NGS formats


  • Introduction to the principles of the technology (kits, flowcell)
  • Principles of basecalling
  • Handling mapping and assembly tools suitable for ONT data
  • How to polish and correct an assembly
  • Detecting structural variations with long reads

Learning objectives

  • Understanding limits and advantages of ONT technology
  • Manipulating ONT data on a virtual machine on jupyter environment
  • Handling mapping, assembly, polishing tools and be able to analyse your own data
  • Detecting structural variations using long reads

Training material


  • Julie Orjuela (JO) -
  • Francois Sabot (FS) -
  • Gautier Sarah (GS) -


Date Location Topics Participants Instructors Links Units
2021 Zoom from Montpellier, France Introduction to ONT data analyses 14 JO, FS, GS UMR DIADE, AGAP