Educators:
Sebastian Jaenicke, Sebastian Jünemann (BiGi), Dirk Winkelhardt (BioInfra.Prot), Helena Schnitzer, Daniel Wibberg, Nils Hoffmann (CAU), Michael Crusoe (CIBI), Sebastian Beier (GCBN), Sebastian Schaaf (RBC)

Keynotes:
Nick Juty – The University of Manchester, ELIXIR UK, Topic: Bioschemas
Björn Grüning – Freiburg University, ELIXIR-DE, Topic: Galaxy
Veit Schwämme - ELIXIR-DK, Topics: Proteomics & Software Development

Date:
25-09-2023 to 29-09-2023

Location:
Center for Biotechnology - Bielefeld University
Room G2-104
Universitätsstraße 27
33615 Bielefeld

Contents:
The life sciences are an important player in the age of Big Data. Modern high-throughput -omics technologies produce large quantities of high-dimensional data. Besides new challenges for analysing and visualising this amount of research data, also the management and sharing has become an important point in the daily research process. The main objective of the 2023 de.NBI Summer School is to give an overview of the possibilities to process, analyse, share and integrate data by using different open source platformsm

Preliminary program:

Monday, 25-09-2023

11:00 – 12:00

Arrival & Registration

12:00 – 13:00

Introduction to de.NBI & ELIXIR Germany & de.NBI Cloud

Daniel Wibberg & Nils Hoffmann

13:00 –14:00

Lunch Break

14:00 – 17:00

de.NBI Cloud in a Nutshell - UNIX & SimpleVM

Nils Hoffmann & Sebastian Jünemann

17:00 – 20:00

Barbecue

Tuesday, 26-09-2023

09:00 – 10:30

Keynote Topic: Workflows and Reproducibility

Björn Grüning

10:30 – 11:00

Coffee Break

11:00 – 13:00

Introduction to Galaxy Europe – Session I?

Sebastian Schaaf

13:00 – 14:00

Lunch Break

14:00 – 16:00

Introduction to Galaxy Europe – Session II /Common Workflow Language - Session I

Sebastian Schaaf

16:00 – 16:30

Coffee Break

16:30 – 18:00

Common Workflow Language - Session II

Michael R. Crusoe

Evening at free disposal

Wednesday, 27-09-2023

09:00 – 10:00

Keynote Topic: Bioschemas

Nick Juty

10:00 – 10:30

Bioschemas Session I

Nick Juty & Leyla Jael Castro

10:30 – 11:00

Coffee Break

11:00 – 13:00

Bioschemas and FAIR - Session II

Nick Juty & Leyla Jael Castro

13:00 – 14:00

Lunch Break

14:00 – 16:00

Bioschemas and FAIR - Session III

Nick Juty & Leyla Jael Castro

16:00 – 18:00

Coffee Break & Flash Talks & Poster session

Evening at free disposal

Thursday, 28-09-2023

09:00 – 10:30

Keynote Topic: TBA

TBA

10:30 – 11:00

Coffee Break

11:00 – 13:00

Introduction to Python – Session I

Dirk Winkelhardt

13:00 – 14:00

Lunch Break

14:00 – 16:00

Introduction to Python – Session II

Dirk Winkelhardt

16:00 – 16:30

Coffee Break

16:30 – 18:00

Merge Python's convenience with Rust's speed

Dirk Winkelhardt

18:30 – 21:00

Dinner at Wirtshaus1802 im Bültmannshof

Friday, 29-09-2023

09:00 – 10:30

Population genomics or Transcriptomics

Sebastian Beier

10:30 – 11:00

Coffee Break

11:00 – 13:00

The MGX framework for microbial community analysis

Sebastian Jaenicke

13:00 – 14:00

Lunch Break

14:00 – 15:00

Summary & Goodbye

Daniel Wibberg
Learning goals:
Participants will learn how to process, analyze, share and integrate data using different open source platforms.

Prerequisites:
The Summer School is targeted towards early career scientists like PhD students and Postdocs, but also experienced scientists, who want to learn more about analysing, handling, storing and publishing the large amount of biological research data.

Keywords:
Research Data Management, FAIR data, Data Publication, Data Privacy, Cloud Computing, Python, Genome annotation, Metagenomics, Galaxy, CWL

Tools:
Python, Rust, Bioschemas, ORCID, de.NBI cloud, MGX, Galaxy, CWL