WEBINAR: Pro tips for scaling bioinformatics workflows to HPC
This record includes training materials associated with the Australian BioCommons webinar ‘Pro tips for scaling bioinformatics workflows to HPC’. This webinar took place on 31 May 2023.
Event description
High Performance Computing (HPC) infrastructures offer the computational scale and...
Keywords: Bioinformatics, Workflows, HPC, High Performance Computing
WEBINAR: Pro tips for scaling bioinformatics workflows to HPC
https://zenodo.org/records/8008227
https://dresa.org.au/materials/webinar-pro-tips-for-scaling-bioinformatics-workflows-to-hpc-9f2a8b90-88da-433b-83b2-b1ab262dd9df
This record includes training materials associated with the Australian BioCommons webinar ‘Pro tips for scaling bioinformatics workflows to HPC’. This webinar took place on 31 May 2023.
Event description
High Performance Computing (HPC) infrastructures offer the computational scale and efficiency that life scientists need to handle complex biological datasets and multi-step computational workflows. But scaling workflows to HPC from smaller, more familiar computational infrastructures brings with it new jargon, expectations, and processes to learn. To make the most of HPC resources, bioinformatics workflows need to be designed for distributed computing environments and carefully manage varying resource requirements, and data scale related to biology.
In this webinar, Dr Georgina Samaha from the Sydney Informatics Hub, Dr Matthew Downton from the National Computational Infrastructure (NCI) and Dr Sarah Beecroft from the Pawsey Supercomputing Research Centre help you navigate the world of HPC for running and developing bioinformatics workflows. They explain when you should take your workflows to HPC and highlight the architectural features you should make the most of to scale your analyses once you’re there. You’ll hear pro-tips for dealing with common pain points like software installation, optimising for parallel computing and resource management, and will find out how to get access to Australia’s National HPC infrastructures at NCI and Pawsey.
Materials
Materials are shared under a Creative Commons Attribution 4.0 International agreement unless otherwise specified and were current at the time of the event.
Files and materials included in this record:
Event metadata (PDF): Information about the event including, description, event URL, learning objectives, prerequisites, technical requirements etc.
Index of training materials (PDF): List and description of all materials associated with this event including the name, format, location and a brief description of each file.
Pro-tips_HPC_Slides: A PDF copy of the slides presented during the webinar.
Materials shared elsewhere:
A recording of this webinar is available on the Australian BioCommons YouTube Channel: https://youtu.be/YKJDRXCmGMo
Melissa Burke (melissa@biocommons.org.au)
Samaha, Georgina (orcid: 0000-0003-0419-1476)
Beecroft, Sarah (orcid: 0000-0002-3935-2279)
Downton, Matthew (orcid: 0000-0002-4693-1965)
Bioinformatics, Workflows, HPC, High Performance Computing
Setting The Scene
Opening Address for the ARDC Skills Summit 2023
This presentation provides a welcome to the ARDC Skills Summit 2023, and includes an outline of the importance of digital research skills to data-enriched research, the value of skills training and highly skilled research workforce to the broader...
Keywords: research, training, skills, training material, ARDC, research data commons, digital research skills agenda
Setting The Scene
https://zenodo.org/records/7710621
https://dresa.org.au/materials/setting-the-scene-8a535906-352b-451e-be82-051b1db4c5de
Opening Address for the ARDC Skills Summit 2023
This presentation provides a welcome to the ARDC Skills Summit 2023, and includes an outline of the importance of digital research skills to data-enriched research, the value of skills training and highly skilled research workforce to the broader economy, and an overview of related ARDC activity.
contact@ardc.edu.au
Russell, Keith (orcid: 0000-0001-5390-2719)
research, training, skills, training material, ARDC, research data commons, digital research skills agenda
ARDC FAIR Data 101 self-guided
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
The course structure was based on 'FAIR Data in the...
Keywords: training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
ARDC FAIR Data 101 self-guided
https://zenodo.org/records/5094034
https://dresa.org.au/materials/ardc-fair-data-101-self-guided-2d794a84-f0ff-4e11-a39c-fa8ea481e097
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
The course structure was based on 'FAIR Data in the Scholarly Communications Lifecycle', run by Natasha Simons at the FORCE11 Scholarly Communications Institute. These training materials are hosted on GitHub.
contact@ardc.edu.au
Stokes, Liz (orcid: 0000-0002-2973-5647)
Liffers, Matthias (orcid: 0000-0002-3639-2080)
Burton, Nichola (orcid: 0000-0003-4470-4846)
Martinez, Paula A. (orcid: 0000-0002-8990-1985)
Simons, Natasha (orcid: 0000-0003-0635-1998)
Russell, Keith (orcid: 0000-0001-5390-2719)
McCafferty, Siobhann (orcid: 0000-0002-2491-0995)
Ferrers, Richard (orcid: 0000-0002-2923-9889)
McEachern, Steve (orcid: 0000-0001-7848-4912)
Barlow, Melanie (orcid: 0000-0002-3956-5784)
Brady, Catherine (orcid: 0000-0002-7919-7592)
Brownlee, Rowan (orcid: 0000-0002-1955-1262)
Honeyman, Tom (orcid: 0000-0001-9448-4023)
Quiroga, Maria del Mar (orcid: 0000-0002-8943-2808)
training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
WEBINAR: Pro tips for scaling bioinformatics workflows to HPC
This record includes training materials associated with the Australian BioCommons webinar ‘Pro tips for scaling bioinformatics workflows to HPC’. This webinar took place on 31 May 2023.
Event description
High Performance Computing (HPC) infrastructures offer the computational scale and...
Keywords: Bioinformatics, Workflows, HPC, High Performance Computing
WEBINAR: Pro tips for scaling bioinformatics workflows to HPC
https://zenodo.org/record/8008227
https://dresa.org.au/materials/webinar-pro-tips-for-scaling-bioinformatics-workflows-to-hpc
This record includes training materials associated with the Australian BioCommons webinar ‘Pro tips for scaling bioinformatics workflows to HPC’. This webinar took place on 31 May 2023.
Event description
High Performance Computing (HPC) infrastructures offer the computational scale and efficiency that life scientists need to handle complex biological datasets and multi-step computational workflows. But scaling workflows to HPC from smaller, more familiar computational infrastructures brings with it new jargon, expectations, and processes to learn. To make the most of HPC resources, bioinformatics workflows need to be designed for distributed computing environments and carefully manage varying resource requirements, and data scale related to biology.
In this webinar, Dr Georgina Samaha from the Sydney Informatics Hub, Dr Matthew Downton from the National Computational Infrastructure (NCI) and Dr Sarah Beecroft from the Pawsey Supercomputing Research Centre help you navigate the world of HPC for running and developing bioinformatics workflows. They explain when you should take your workflows to HPC and highlight the architectural features you should make the most of to scale your analyses once you’re there. You’ll hear pro-tips for dealing with common pain points like software installation, optimising for parallel computing and resource management, and will find out how to get access to Australia’s National HPC infrastructures at NCI and Pawsey.
Materials
Materials are shared under a Creative Commons Attribution 4.0 International agreement unless otherwise specified and were current at the time of the event.
Files and materials included in this record:
Event metadata (PDF): Information about the event including, description, event URL, learning objectives, prerequisites, technical requirements etc.
Index of training materials (PDF): List and description of all materials associated with this event including the name, format, location and a brief description of each file.
Pro-tips_HPC_Slides: A PDF copy of the slides presented during the webinar.
Materials shared elsewhere:
A recording of this webinar is available on the Australian BioCommons YouTube Channel: https://youtu.be/YKJDRXCmGMo
Melissa Burke (melissa@biocommons.org.au)
Samaha, Georgina (orcid: 0000-0003-0419-1476)
Beecroft, Sarah (orcid: 0000-0002-3935-2279)
Downton, Matthew (orcid: 0000-0002-4693-1965)
Bioinformatics, Workflows, HPC, High Performance Computing
Setting The Scene
Opening Address for the ARDC Skills Summit 2023
This presentation provides a welcome to the ARDC Skills Summit 2023, and includes an outline of the importance of digital research skills to data-enriched research, the value of skills training and highly skilled research workforce to the broader...
Keywords: research, training, skills, training material, ARDC, research data commons, digital research skills agenda
Setting The Scene
https://zenodo.org/record/7710621
https://dresa.org.au/materials/setting-the-scene
Opening Address for the ARDC Skills Summit 2023
This presentation provides a welcome to the ARDC Skills Summit 2023, and includes an outline of the importance of digital research skills to data-enriched research, the value of skills training and highly skilled research workforce to the broader economy, and an overview of related ARDC activity.
contact@ardc.edu.au
Russell, Keith (orcid: 0000-0001-5390-2719)
research, training, skills, training material, ARDC, research data commons, digital research skills agenda
ARDC FAIR Data 101 self-guided
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
The course structure was based on 'FAIR Data in the...
Keywords: training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
ARDC FAIR Data 101 self-guided
https://zenodo.org/record/5094034
https://dresa.org.au/materials/ardc-fair-data-101-self-guided-bba41a59-8479-4f4f-b9ee-337b9eb294bf
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
The course structure was based on 'FAIR Data in the Scholarly Communications Lifecycle', run by Natasha Simons at the FORCE11 Scholarly Communications Institute. These training materials are hosted on GitHub.
contact@ardc.edu.au
Stokes, Liz (orcid: 0000-0002-2973-5647)
Liffers, Matthias (orcid: 0000-0002-3639-2080)
Burton, Nichola (orcid: 0000-0003-4470-4846)
Martinez, Paula A. (orcid: 0000-0002-8990-1985)
Simons, Natasha (orcid: 0000-0003-0635-1998)
Russell, Keith (orcid: 0000-0001-5390-2719)
McCafferty, Siobhann (orcid: 0000-0002-2491-0995)
Ferrers, Richard (orcid: 0000-0002-2923-9889)
McEachern, Steve (orcid: 0000-0001-7848-4912)
Barlow, Melanie (orcid: 0000-0002-3956-5784)
Brady, Catherine (orcid: 0000-0002-7919-7592)
Brownlee, Rowan (orcid: 0000-0002-1955-1262)
Honeyman, Tom (orcid: 0000-0001-9448-4023)
Quiroga, Maria del Mar (orcid: 0000-0002-8943-2808)
training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
ARDC FAIR Data 101 self-guided
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
Keywords: training material, FAIR data, research data, data management, FAIR
Resource type: presentation, quiz, activity
ARDC FAIR Data 101 self-guided
https://zenodo.org/record/5094034#.YQyLbY4zaUk
https://dresa.org.au/materials/ardc-fair-data-101-self-guided
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
ARDC Contact us: https://ardc.edu.au/contact-us/
Liz Stokes
Matthias Liffers
Nichola Burton
Paula A. Martinez
Natasha Simons
Keith Russell
Siobhann McCafferty
Richard Ferrers
Steve McEachern
Melanie Barlow
Tom Honeyman
Maria del Mar Quiroga
training material, FAIR data, research data, data management, FAIR
phd
ecr
researcher
support
Software publishing, licensing, and citation
A short presentation for reuse includes speaker notes.
Making software citable using a code repository, an ORCID and a licence.
Cite as
Liffers, Matthias. (2021, July 12). Software publishing, licensing, and citation. Zenodo. https://doi.org/10.5281/zenodo.5091717
Keywords: software citation, software publishing, software registry, software repository, research software
Resource type: presentation
Software publishing, licensing, and citation
https://zenodo.org/record/5091717#.YQyPtY4zaUk
https://dresa.org.au/materials/software-publishing-licensing-and-citation
A short presentation for reuse includes speaker notes.
Making software citable using a code repository, an ORCID and a licence.
**Cite as**
Liffers, Matthias. (2021, July 12). Software publishing, licensing, and citation. Zenodo. https://doi.org/10.5281/zenodo.5091717
ARDC Contact us: https://ardc.edu.au/contact-us/
Matthias Liffers
software citation, software publishing, software registry, software repository, research software
phd
ecr
researcher
support
ARDC Guide to making Software Citable
A short guide to making software citable using a code repository, an ORCID and a licence.
Cite as
Liffers, Matthias, & Honeyman, Tom. (2021). ARDC Guide to making software citable. Zenodo. https://doi.org/10.5281/zenodo.5003989
Keywords: software citation, software publishing, software registry, software repository, research software
Resource type: guide
ARDC Guide to making Software Citable
https://zenodo.org/record/5003989#.YQyRI44zaUk
https://dresa.org.au/materials/ardc-guide-to-making-software-citable
A short guide to making software citable using a code repository, an ORCID and a licence.
**Cite as**
Liffers, Matthias, & Honeyman, Tom. (2021). ARDC Guide to making software citable. Zenodo. https://doi.org/10.5281/zenodo.5003989
ARDC Contact us: https://ardc.edu.au/contact-us/
Matthias Liffers
Tom Honeyman
software citation, software publishing, software registry, software repository, research software
phd
ecr
researcher
support
