de.NBI - CeBiTec Nanopore Best Practice Workshop 2019

Bielefeld 

Educators:
Stefan Albaum, Sebastian Jünemann, Nils Kleinbölting, Alexander Sczyrba (BiGi), Daniel Wibberg (CAU), Björn Usadel (GCBN), Christian Rückert, Jörn Kalinowski (CeBiTec)

Date:
25 - 27 September 2019

Location:
Bielefeld University, Universitätsstraße 25, 33615 Bielefeld

Content:
Aim of this workshop is to familiarise the participants with the Nanopore sequencing technology, its applications and the "Best Practice" bioinformatics workflow. The Nanopore technology have greatly facilitated the assembly of prokaryotic and eukaryotic genomes. Therefore, the workshop is focused on the establishment of finalized genome sequences.

This workshop will be composed of different talks including introductions to the Nanopore sequencing technology and working in the de.NBI cloud as well as different hands-on sessions. During the talks, the advantages and pitfalls of Nanopore sequencing will be discussed. The hands-on sessions will illustrate the typical workflow from the Nanopore sequencing to the final assembled genome.

Learning goals:
This workshop aims to teach basic skills and best practices to researchers working with Nanopore data. The final goal is to enable them to use the resulting reads for a de novo assembly.

Prerequisites:
This workshop is intended for PhD students and postdocs with molecular biology background in genomics. Good understanding of command line tools is a plus, but not required.

Tool:
Canu, Pilon, Albacore, Porechop, Metricor, Poretools

Keywords:
Nanopore sequencing, genome assembly, genomics