Training

• Upcoming training sessions
• Regular training sessions
• On-demand training sessions
• Previous training sessions​

Upcoming training sessions

Title: Introduction to HPC
Dates & times: 
Friday, 30 June 2017, 10am–1pm            
Friday, 21 July 2017, 10am–1pm
Short description: This hands on session will be for new users of Tinaroo, Euramoo and FlashLite. 
Presenter: RCC's Dr David Green.
Training material: Available at the training session.
Location: Room R505A, Level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Register: Via email to rcc-support@uq.edu.au

Training sessions can be organised by emailing the RCC Support Desk: rcc-support@uq.edu.au

Regular training sessions

On-demand training

Title: Introduction to Galaxy
Dates & time: By arrangement with Dr Igor Makunin
Short description: We cover different topics of nextGen sequencing data analysis using Galaxy platform, such as RNA-Seq, Variant identification / resequencing, ChIP-Seq, microbial genome assembly, or general data manipulation, including creation and use of workflows in Galaxy. Workflows can be developed on request from users.
Presenter: Dr Igor Makunin, RCC UQ                                                
Contact: Dr Igor Makunin, RCC, i.makunin@uq.edu.au       

Previous training sessions

Title: Creating a virtual machine on the Australian Research Cloud
Dates & time: Tuesday, 15 November 2016, 9am–12pm            
Short description: A hands-on introductory workshop on the Australian Research Cloud (also known as Nectar). Learn how to gain access to Nectar resources.
Presenter: Belinda Weaver, QCIF/RCC eResearch Analyst Team Leader
Training material: Available at the training session.
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Register/more info: click here
Contact: b.weaver@uq.edu.au

Title: Engineering Software Tools Inspire & Evolve workshop
Dates & time: Wednesday, 17 August 2016, 9:30am–5:30pm            
Short description: Inspire and Evolve are tools that work at the intersection between design and technology, enabling designers and engineers to find solutions quicker. This free workshop is completely technical and hands-on.
Presenter: Expert trainers in Inspire & Evolve.
Training material: Trial software will be provided prior to the event.
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Register/more info: click here
Contact: rcc-support@uq.edu.au

Title: Galaxy workshop
Dates & time: Wednesday, 17 August 2016, 10am–1pm            
Short description: The workshop will cover differential gene expression analysis using nextGen sequencing data and Galaxy workflow. The training is aimed for new Galaxy users.
Presenter: RCC's Dr Igor Makunin.
Training material: Available at the training session.
Location: Multi-Media Room 3.141, Queensland Bioscience Precinct/IMB, St Lucia Campus, UQ, QLD 4067
Register/Contact: igor@genome.edu.au

Title: Introduction to HPC
Dates & time: Friday, 26 August 2016, 1pm–4pm            
Short description: This hands on session will be for new users of Tinaroo, Euramoo and FlashLite. 
Presenter: RCC's Dr David Green.
Training material: Available at the training session.
Location: Room R505A, Level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: rcc-support@uq.edu.au

Title: Introduction to HPC
Dates & time: Friday, 24 June 2016, 1pm–4pm            
Short description: This hands on session will be for new users of the Euramoo cluster, and will also include a 'tour' of Tinaroo. 
Presenter: RCC's Dr David Green.
Training material: Available at the training session.
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: rcc-support@uq.edu.au

Title: Tinaroo HPC Applications Training
Dates & time: 6–9 June 2016, 9am–5pm            
Short description: This course is for users who are compiling and running applications  based on shared memory (multi-core) and/or message passing (multi-node) HPC paradigms. It is specifically targeted at getting codes running well on Tinaroo. The training is being provided as part of the purchase of Tinaroo.
Presenter: Tinaroo provider SGI.
Training material: Available at the training session.
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: rcc-support@uq.edu.au

Title: Introduction to HPC
Dates & time: Friday, 27 May 2016, 1pm–4pm            
Short description: This hands on session will be for new users of the Euramoo cluster, and will also include a 'tour' of Tinaroo. 
Presenter: RCC's Dr David Green.
Training material: Available at the training session.
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: rcc-support@uq.edu.au

Title: Altair HyperWorks training
Dates & time: 4–6 May 2016, 9am–5pm            
Short description: The aim of this three-day course is for UQ staff and students to gain a thorough understanding of the  Altair HyperWorks suite of computer-aided engineering software. RCC acquired a licence for HyperWorks as part of its purchase of Tinaroo, the high performance computing cluster replacing the Barrine HPC.
Presenter: RCC's Dr David Green.
Training material: Available at the training session.
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: rcc-support@uq.edu.au

Title: Software Carpentry Bootcamp
Dates & time: 28–29 September 2015, 9am-4pm
Short description: Software Carpentry's mission is to help scientists and engineers get more research done in less time and with less pain by teaching them basic lab skills for scientific computing. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.
Training material: http://bio-swc-bne.github.io/2015-09-28-UQ/
Cost: $60 including morning and afternoon tea.
Location: The Boardroom, St. Leo's College, College Road, St Lucia Campus, UQ, QLD 4067
Contact: Belinda Weaver, RCC, b.weaver@uq.edu.au

Title: Statistics for Frightened Bio-Researchers
Dates & time: Mondays 10am-12pm, June 29, July 13, July 27, Aug 3, Aug 17 and Aug 24
Short description: A joint course organised by and for members of the Institute for Molecular Bioscience and the Australian Institute for Bioengineering and Nanotechnology and written and presented Dr Kim-Anh Le Cao of the Diamantina Institute. The course will cover basic concepts of statistics for bio-researchers including summarising and presenting data, experimental design, hypothesis testing, testing means in independent groups, data mining and data exploration.
Training material: http://www.di.uq.edu.au/statistics (link needs to be updated once online)
Location: Large Seminar Room, Institute for Molecular Bioscience, St Lucia Campus, UQ, QLD 4067
Contact: Dr Nick Hamilton, RCC/IMB, n.hamilton@uq.edu.au

Title: FlashLite Information Session
Dates & time: 7 August 2015, 10:30am-4:30pm
Short description: Learn how the new data intensive high performance computer FlashLite can help your research. The session will start with Prof Michael Norman, Director of the San Diego Supercomputer Centre, discussing the experience of the NSF funded Gordon supercomputer (which inspired FlashLite’s design), and how this has supported a range of data intensive applications. From 1pm–3:30pm, RCC’s David Green will conduct a hands-on FlashLite workshop (please bring your laptop).
 
If you have not used a HPC service or might be a bit rusty, RCC will hold a hands-on workshop on Friday, 31 July at 1pm.
Cost: Free
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: rcc-support@uq.edu.au

Title: Kepler Scientific Workflow System workshop
Dates & time: 14 July 2015, 9am-4:30pm
Short description: Speakers:
Ilkay Altintas is the Director for the Center of Excellence in Workflows for Data Science at the San Diego Supercomputer Center (SDSC), University of California, San Diego.
Siddeswara Guru is the TERN (Terrestrial Ecosystem Research Network) Data Integration and Synthesis Coordinator at The University of Queensland.
Matthew Watts is a computer programmer and systems analyst working for Professor Hugh Possingham at The Ecology Centre, University of Queensland. In this workshop, we introduce the Kepler scientific workflow system to scientists and researchers from varied disciplines. 
Cost: Free. 
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: m.dinh1@uq.edu.au

Title: Software Carpentry Bootcamp
Dates & time: 2–3 July 2015, 9am-4pm
Short description: Software Carpentry's mission is to help scientists and engineers get more research done in less time and with less pain by teaching them basic lab skills for scientific computing. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.
Training material: http://bio-swc-bne.github.io/2015-07-02-UQ/
Cost: $60 including morning and afternoon tea.
Location: The Boardroom, St. Leo's College, College Road, St Lucia Campus, UQ, QLD 4067
Contact: Belinda Weaver, RCC, b.weaver@uq.edu.au

Title: The Winter School in Mathematical and Computational Biology
Dates & time: 6–10 July 2015
Short description: Featuring more than 35 international and national leaders in the field in bioinformatics and computational biology, the Winter School is the premier and largest bioinformatics training event in Australia. Designed to be accessible to both biologists and computational scientists, themes this year include next generation sequencing, biological inference from sequence data, big data, and statistics and bio-applications. This year's program will also feature a Genomics Virtual Laboratory training workshop (limited places) and a Software Carpentry Bootcamp (limited places) to introduce programming concepts to bio-researchers.
Training material: http://bioinformatics.org.au/ws15/
Location: Queensland Biosciences Precinct, St Lucia Campus, UQ, QLD 4067
Contact: Dr Nick Hamilton, RCC/IMB, n.hamilton@uq.edu.au

Title: NCI Training Sessions — Raijin
Dates & time: 29–30 June 2015, 9am-4pm
Short description: Staff from the NCI will run user training for UQ users. 29 June is the Introductory Session on “Using Raijin”. 30 June involves an advanced course on “Parallel Programming and Performance on Raijin”. 
Cost: free
Contact: rcc-support@uq.edu.au 

Title: ScaleMP vSMP Training Module 1.1
Dates & time: 3.30–5.00pm, 21 April 2015
Short description: This first vSMP Training Module for FlashLite will include a general overview and introduction, but it is more targeted at IT personnel and sysadmins (as compared to the later modules for developers and application support).
Presenter: Erez Velan, ScaleMP
Training material:
Location: Room R505A, level 5, Axon Building, Building 47, St Lucia Campus, UQ, QLD 4067
Contact: Prof David Abramson, RCC, david.abramson@uq.edu.au

Title: RNA-Seq in Galaxy
Dates & time: 15 April 2015 
Short description: The workshop includes analysis of differential gene expression with Cufflinks package (tophat > Cuffdiff > filtering), as well as creation and use of workflows in Galaxy. 
Presenter: Dr Igor Makunin, RCC UQ
Training material: 150417_QAAFI-RNA-Seq (PPTX, 295KB)
Location: QBP Board Room, UQ
Contact: Agnelo Furtado, QAAFI, a.furtado@uq.edu.au

Title: Genomics Virtual Lab: analyse your data with a mouse click
Dates & time: 4 April 2015 
Short description: Introduction to Galaxy-qld server (http://galaxy-qld.genome.edu.au) and Genomics Virtual Lab project. Galaxy-qld has hundreds of tools for both general data manipulation and processing of high-throughput sequencing data or FASTA sequences. The GVL website offers tutorials and protocols for analysis of high-throughput sequencing data such as genome resequencing (variant calling), differential gene expression (RNA-Seq), ChIP-Seq.
Presenter: Dr Igor Makunin, RCC UQ
Training material: 150408_QAAFI (PPTX, 793KB)
Location: Small Seminar Room, QBP, UQ
Contact: Agnelo Furtado, QAAFI, a.furtado@uq.edu.au

Title: Differential gene expression analysis in Galaxy
Dates & time: 9 February 2015         
Short Description: This workshop includes analysis of differential gene expression with Cufflinks package and introduction to workflows in Galaxy.
Presenter: Dr Igor Makunin, RCC UQ
Training material: 150209_DI (PPTX, 612KB)
Location: Diamantina Institute/Translational Research Institute, UQ
Contact: Prof David Evans, Diamantina Institute, d.evans1@uq.edu.au

Title: Genomics Virtual Lab: analyse your data with a mouse click
Dates & time: 6 February 2015
Short description: The Genomics Virtual Lab provides web-based public resources for visualisation and analysis of big biological datasets, such as tables, sequences or genomic regions. Here in Brisbane, we maintain the Galaxy-qld server (http://galaxy-qld.genome.edu.au) where researchers can work with data by “a mouse click”, without programming or bash scripting. Galaxy-qld has hundreds of tools for both general data manipulation and processing of high-throughput sequencing data or FASTA sequences. Our website (https://genome.edu.au/) offers tutorials and protocols for analysis of high-throughput sequencing data such as genome resequencing (variant calling), differential gene expression (RNA-Seq), and ChIP-Seq. The talk will include a demo session of data analysis on Galaxy server. The talk is aimed at a broad range of biologists and does not require knowledge of genomics or programming.
Presenter: Dr Igor Makunin, RCC UQ
Training material: 150206_School_of_Agriculture (PPTX, 794KB)
Location: Large Seminar Room, QBP, UQ
Contact: Dr Michael Mason, School of Agriculture and Food Sciences, michael.mason@uq.edu.au