Galaxy seminar at UQ

Come to our talk about Galaxy-qld at the Centre for Digital Scholarship in the UQ Library. The seminar is essentially an introduction to analysis of high throughput sequencing data using Galaxy platform. Galaxy is user-freindly web-based platform for computationally intensive data analysis. It does not require IT knowledge or programming skills. The talk might be useful for biologists not familiar with high throughout sequencing methods but interested in analysis of nextGen sequencing data.

9.30am – 10.30am, Thursday 8 February 2018

St Lucia campus
Duhig Building (2)
Centre for Digital Scholarship (Level 5)
eZone (Room 501) – i.e. Level 5 above Merlot Café

Click here to see details online.

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RNA-Seq workshop at UQ

We run RNA-Seq in Galaxy workshop at UQ on November 15-16, 2017. Registration is essential. The participants will use Galaxy-tut server.

We will do the following:
data upload by ftp
GVL Basic RNA-Seq tutorial
GVL Advanced RNA-Seq tutorial
Galaxy workflows.

Slides from the workshop are available as pdfs:
Introduction to NGS
RNA-Seq in Galaxy.

There will be a limited user support for Galaxy-qld during the workshop.

Microbial genomics workshop at UQCCR

On November 4, 2017 we are holding a Galaxy training at UQCCR, Herston, for participants of the Practical Microbial Genomics Workshop. The training  is based on Public data → assembly, annotation, MLST tutorial created by Melbourne Bioinformatics.

Slides for the workshop: pdf

Because of time constrains we will use files from a data library available on the server. Instruction for data import: pdf

Workshop: RNA-Seq analysis using Galaxy

QFAB announced a new Galaxy workshop on RNA-Seq analysis.

When: Wed, 13/09/2017 – 09:00 to Thu, 14/09/2017 – 12:30.

Where: MultiMedia Room 3.141, Queensland Bioscience Precinct (building 80), The University of Queensland, St Lucia.

Cost: $25. Registration is essential.

Participants need to bring a wi-fi-enabled laptop capable to eduroam connection. The room is equipped with power points for every participant.

Presentations from the workshop (pdf):
Introduction to Galaxy
RNA-Seq with Galaxy
Galaxy workflow.

Instructions for exercises:
Data upload by ftp
Galaxy workflow.

Open file in a new tab by clicking on the link above. Switch to the new tab and download the file on your computer.

Galaxy workshop: assembly of microbial genomes

A Galaxy workshop, Genome assembly using Galaxy, is scheduled on August 2-3, 2017. The event is arranged by QFAB. The training will be done by QFAB stuff and members of GVL-Qld team. The registration is essential.

Venue: Room 3.141, IMB/QBP, UQ, St Lucia

Start: 9:00 AM, August 2, 2017
End: 12:30, August 3, 2017

Presentations for the workshops are available in pdf format:
Introduction to Galaxy
Genome assembly with Galaxy

Galaxy workshop at UQ: expression of interest

Are you interested in attending a Galaxy workshop at UQ? Email Igor at i.makunin@uq.edu.au. The date and place will be arranged when I get expression of interest from several persons. The proposed topic: RNA-Seq in Galaxy (analysis of differential gene expression using high throughput sequencing data). The workshop is aimed on new Galaxy users. It will cover data import, alignment of reads to a reference genome, Cuffdiff, data manipulation in Galaxy. The participants will create and use a Galaxy workflow.

Slides from Galaxy workshop at QBP

galaxy_workshop170816_smal

Galaxy workshop at QBP on August 17, 2016. Picture: courtesy of Nick Hamilton.

The event was fully booked, and all participants turned up for the workshop. We started with an introduction talk covering some local options available to researchers, with emphasis on Galaxy platform and Galaxy-qld server. The participants had minor problem with Galaxy-tut server at the very start of the training session, but Derek managed to fix it. The server was a bit slow in response, but the session was finished on time, with ample time left for questions.

Slides from the workshop are available as a pdf file.