Sequencing read QC using Galaxy

31 August 2022 - 2-4pm
21 Bedford St, North Melbourne, VIC 3051

Workshops

Sequencing read QC using Galaxy

Learn how to perform QC on raw sequencing reads using the Galaxy interface

Workshop Description:

This beginners tutorial will teach you how to use the Galaxy’s interface to perform quality control of raw long and short read sequencing data. The material covered in this workshop is freely available at this link. Galaxy is an open source, web-based platform for accessible, reproducible, and transparent computational biomedical research. It allows users without programming experience to easily specify parameters and run individual tools as well as larger workflows. It also captures run information so that any user can repeat and understand a complete computational analysis. Finally, it allows users to share and publish analyses via the web.

Lead trainer:Gayle Philip

(Melbourne Bioinformatics, The University of Melbourne)

Learning objectives

By the end of this training, participants will be able to:
  • Assess short reads FASTQ quality using FASTQE 🧬😎 and FastQC
  • Assess long reads FASTQ quality using Nanoplot and PycoQC
  • Perform quality correction with Cutadapt (short reads)
  • Summarise quality metrics MultiQC
  • Process single-end and paired-end data

Target audience:

The workshop is aimed at bench researchers and with no coding/programming skills who wish to learn how to perform quality control of long or short read sequencing in their research.

Eligibility:

This free workshop is available to staff and students at The University of Melbourne and its affiliated institutes only (refer to ‘Members’ section). You must register for this event using an affiliated institutional email address or your registration may be cancelled.

Required:

This training workshop will be conducted using Galaxy. It is important that you are familiar with navigating the Galaxy platform as the workshop will not include introductory content on how to use the platform. Attendance at a previous Galaxy workshop, such as the one we have scheduled earlier on the day, or working through this material, is sufficient for attendance. This is an in person hands-on workshop and attendees must bring their own computers (laptop chargers also recommended) with access to the Uniwireless or Eduroam internet/wifi. The following software must also be preinstalled:
  • Access to internet
  • Web browser (Firefox or Chrome recommended)

Access

If you require any further information, or have any access requirements in order to participate in this workshop, please contact the workshop organiser Melbourne Bioinformatics as soon as possible to discuss your requirements: bioinformatics-training@nullunimelb.edu.au