Training and Events

Our experts have all been involved in developing and delivering workshops here and overseas for many years now. Workshops are delivered on-site or may be run in-house for your group. Many of the training materials were developed for use on the Australian-made Genomics Virtual Laboratory and these are used in our formal workshops and are also available for use to deliver your own workshops or for self-directed learning.


All upcoming workshops and events for building bioinformatics careers are listed below. Sign up to our newsletter for regular updates and also go to the EMBL Australia Bioinformatics Resource to select training options from listings worldwide. EMBL-EBI’s Train Online is also a terrific resource for self-directed learning.

There are Science Gateways webinars on a range of subjects of interest, including bioinformatics eg. iTasser, Python etc. Science gateways are online interfaces that give researchers, educators, and students easy access to specialised, shared resources that are specific to a science or engineering discipline. You can sign up there for regular updates.

CLICK HERE FOR OTHER MELBOURNE PRECINCT TRAINING OPPORTUNITIES

We’re also interested to hear from any Melbourne precinct research group or individual researchers and students about training needs: please email the Communications Team with your suggestions or requests.


UPCOMING MELBOURNE BIOINFORMATICS WORKSHOPS

Most workshops are FREE for all researchers and students from the University of Melbourne and its affiliated research institutes.
For whole day workshops, a flat fee of $20 will be charged for catering. External participants are welcome.

Half day workshop

Students or Academics, University of Melbourne and affiliates: $0

Students or Academics, non-affiliates: $200

Industry/Government:                           $300

Full day workshop (morning/afternoon tea and lunch provided)

Students or Academics, University of Melbourne and affiliates: $20

Students or Academics, non-affiliates: $450

Industry/Government:                           $550

March 22, 2019 - 9.30am-12.30pm
Melbourne Bioinformatics Boardroom, 187 Swanston Street, Carlton, VIC 3053, Australia

Workshops

RNA-Seq Differential Gene Expression Analysis using Galaxy and the GVL

In this tutorial we cover the concepts of RNA-seq differential gene expression (DGE) analysis using a simulated dataset from the common fruit fly, Drosophila melanogaster. (more…)

LAST RUN: October 18, 2018

March 25, 2019 - 1.30pm-4.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan Street, Carlton, VIC 3053 Australia

Workshops

Genome Browsers and using UCSC genome Browser tools

This workshop will provide an overview of different types of browsers and a detailed hands on tutorial on the UCSC genome browser, illustrating a number of tools. We will use example data to demonstrate how to make and upload custom tracks on the UCSC genome browser and use the Table browser to retrieve the genomic positions for targets of interest for a custom bed file.

You will also learn how to load and view publicly available RNA-seq data in the Integrative Genome Browser (Broad Institute) and visualise the individual reads of NGS data. (more…)

LAST RUN: March 22, 2018

March 26, 2019 - 9:30am-12.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan Street, Carlton, VIC 3053, Australia

Workshops

Introduction to Variant Calling with Galaxy & the GVL

The tutorial is designed to introduce the tools, datatypes and workflow of variant detection. We will align reads to the genome, look for differences between reads and reference genome sequence, and filter the detected genomic variation manually to understand the computational basis of variant calling.

In this tutorial we cover the concepts of detecting small variants (SNVs and indels) in human genomic DNA using a small set of reads from chromosome 22.

At the end of this course you will be able to:

  • Work with the FASTQ format and base quality scores
  • Align reads to generate a BAM file and subsequently generate a pileup file
  • Run the FreeBayes variant caller to find SNVs and indels
  • Visualise BAM files using the Integrative Genomics Viewer (IGV) and identify likely SNVs and indels by eye

This is a hands-on workshop and attendees should bring their own laptops.

LAST RUN: March 21, 2018

April 5, 2019 - 9.30am-12.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan Street, Carlton, VIC 3053 Australia

Workshops

Introduction to long-read genome assembly

New genome sequencing technologies are producing much longer reads. This workshop combines an introductory presentation on the theory of de novo genome assembly with hands-on practice. We will use a cut-down data set of bacterial FASTQ reads from PacBio (long read) sequencing. Using command-line tools, we will assemble the reads with the tool Canu and correct the assembly with short read Illumina data. (more…)

LAST RUN: October 31, 2018

May 20, 2019 - 1.30pm-4.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan St, Carlton VIC 3053

Workshops

Data tidying with Python and Pandas

This workshop covers practical approaches for handling data in Python. We will use the Python library Pandas. This workshop is a recommended prerequisite for the Data Visualisation workshop. In order to do effective data analysis or visualisation, we usually need to have our data cleaned and in a consistent format. We will cover the concept of “tidy”, and long-form, and wide-form data, and hands-on approaches for manipulating data and fixing common problems. This workshop concentrates on tabular data, like that found in spreadsheets or databases. (more…)


May 22, 2019 - 1.30pm-4.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan St, Carlton VIC 3053

Workshops

Data visualisation with Python

Python has a wide range of libraries for plotting and visualising data. Many of these are excellent, but it can be hard for a newcomer to know where to start. We will introduce the range of options available, then do hands-on visualisation exercises with some popular libraries: Matplotlib, Seaborn, and Altair. Seaborn builds on Matplotlib to easily create beautiful statistical visualisations. Altair is intended for interactive visualisation and makes it easy to create complex responsive visualisations. (more…)


May 23, 2019 - 9.30am-12.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan St, Carlton VIC 3053

Workshops

Common Workflow Language for Bioinformatics

Common Workflow Language (or CWL), is a growing language for defining workflows in a cross-platform and cross-domain manner. In biology in particular, we need workflows to automate complex analyses such as DNA variant calling, RNA sequencing, and genome assembly. CWL provides a simple and well-defined format for automating these analysis by specifying their stages and connections using readable CWL documents. (more…)

LAST RUN: July 2, 2018

May 30, 2019 - 1.30pm-4.30pm
Melbourne Bioinformatics Boardroom, 187 Grattan St, Carlton

Workshops

Containerised Bioinformatics: Docker and other tools for reproducible analysis

This beginners workshop will explain how containerisation can be used in bioinformatics analysis.

Overview

Containerisation is a method of bundling an application or pipeline with all its dependencies, from language runtimes like Python and R to the operating system itself. This technology has already revolutionised web development by providing a simple way to run web applications a in precisely controlled environment, regardless of which computer system they are running on.

This workshop will explain how these advantages can be easily applied to bioinformatics analysis, to ensure 100% reproducibility of your work, along with easy distribution of your pipelines to other users without the need for complex installation. (more…)

LAST RUN: October 29, 2018

June 4, 2019 -
University of Melbourne

Workshops

Introduction to RNA-seq analysis using R – coming soon

Please subscribe to our newsletter or follow us on twitter to hear when registrations open.


June 5, 2019 - 2.00-5.00pm
Melbourne Bioinformatics Boardroom, 187 Grattan St, Carlton VIC 3053

Workshops

Best Practices in Bioinformatics Software Development

Overview

Software development is a central part of bioinformatics, but for many reasons software quality is not always prioritised, leading to problems in maintenance, usability and reproducibility. Adopting software engineering best practices at the beginning of a project can address these problems, but this is often not done due to lack of time and/or experience. This workshop covers the essentials of good programming practices and provides you with tools and knowledge to build high quality bioinformatics software from the outset. We will introduce a tool for quickly creating new software projects with important features and infrastructure already included. You will use this tool to initialise a new project including a fresh repository on GitHub.

Target audience

Bioinformaticians with beginner to intermediate level of programming experience who want to apply good software engineering practices in their daily work. Experience with the Unix command-line is assumed. Basic familiarity with Python (or similar languages) is an advantage.

(more…)


June 6, 2019 -
University of Melbourne

Workshops

Single cell RNA analysis – coming soon

Please subscribe to our newsletter or follow us on twitter to hear when registrations open.