Galaxy Training: Using Galaxy for RNA-seq

Galaxy Training: Using Galaxy for RNA-seq

Target Audience:
Clemenspoort Gent

Overwale 3
9000 Ghent
Belgium

08 October 2019

General context

Galaxy software framework is an open-source application. It is a system that enables researchers without informatics expertise to perform computational biology analyses through the web.

Objectives

This practical aims to familiarize you with the Galaxy user interface & execute a complete analysis of RNA-seq data.

It will teach you how to perform basic tasks such as importing data, running tools, working with histories, creating workflows, and sharing your work. In this tutorial we will introduce you to bare basics of Galaxy:

  • Getting data from external databases such as UCSC
  • Performing simple data manipulation
  • Understanding Galaxy’s History system
  • Creating and running a workflow

The RNA-seq data analysis part comprises:

  • Filtering and quality control of reads
  • Mapping of reads to reference genomes
  • Examples of downstream data-analysis possibilities (variant calling, differential expression, etc.) 

This workshop is organised by ELIXIR Belgium.

Event intended for

Biologists and other life science researchers who would like an introduction to Galaxy, its workflows and use it for NGS analysis.

Required skills

No prior bioinformatis knowledge is required.

Trainers

Lieven Sterck

Lieven Sterck has a background in biotechnology and a PhD in bioinformatics from Ghent University. Currently he is a senior postdoc in the Applied Bioinformatics and Biostatistics group of the VIB Center for Plant System Biology. 

Tuur Muyldermans
Tuur

Tuur Muyldermans is a bioinformatics trainer at the VIB Bioinformatics Core and ELIXIR Belgium. 

Program

Working with Galaxy user interface

RNA-seq analysis with Galaxy

Practical info

Clemenspoort Gent

Overwale 3
9000 Ghent
Belgium

Parking

We offer parking lots (1.20 € per hour). GPS address: Sint-Denijslaan 251.
Please take the neem the exit SPORTHAL HoGent (not Campus HoGent) and drive all the way to the end, so past the parking slots of HoGent.

Public transport

The train station Ghent St-Pieters is only 250 m away. We have 40 bike lots.

Contact

VIB training
Tel: +32 9 244 66 11
Mail: training@vib.be