5 materials found
Difficulty level: Not specified
and
Authors: Dow, Ellen (orcid: 0000-000... or Belinda Weaver or Downton, Matthew (orcid: 00...
WEBINAR: KBase - A knowledge base for systems biology
This record includes training materials associated with the Australian BioCommons webinar ‘KBase - A knowledge base for systems biology’. This webinar took place on 22 September 2021.
Event description
Developed for bench biologists and bioinformaticians, The Department of Energy Systems...
Keywords: Systems Biology, FAIR Research, Open Source Software, Metagenomics, Microbiology
WEBINAR: KBase - A knowledge base for systems biology
https://zenodo.org/records/5717580
https://dresa.org.au/materials/webinar-kbase-a-knowledge-base-for-systems-biology-653d9753-989d-4194-9230-6e2d90652955
This record includes training materials associated with the Australian BioCommons webinar ‘KBase - A knowledge base for systems biology’. This webinar took place on 22 September 2021.
Event description
Developed for bench biologists and bioinformaticians, The Department of Energy Systems Biology Knowledgebase (KBase) is a free, open source, software and data science platform designed to meet the grand challenge of systems biology: predicting and designing biological function.
This webinar will provide an overview of the KBase mission and user community, as well as a tour of the online platform and basic functionality. You’ll learn how KBase can support your research: Upload data, run analysis tools (Apps), share your analysis with collaborators, and publish your data and reproducible workflows. We’ll highlight a brand new feature that enables users to link environment and measurement data to sequencing data. You’ll also find out how KBase supports findable, accessible, interoperable, and reusable (FAIR) research by providing open, reproducible, shareable bioinformatics workflows.
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.
Q&A for Australian BioCommons KBase Webinar [PDF]: Document containing answers to questions asked during the webinar and links to additional resources
Introduction to KBase: Australian BioCommons Webinar [PDF]: Slides presented during the webinar
Materials shared elsewhere:
A recording of the webinar is available on the Australian BioCommons YouTube Channel:
https://youtu.be/tJ94i9gOJfU
The slides are also available as Google slides:
https://tinyurl.com/KBase-webinar-slides
Melissa Burke (melissa@biocommons.org.au)
Dow, Ellen (orcid: 0000-0002-2079-0260)
Wood-Charlson, Elisha (orcid: 0000-0001-9557-7715)
Systems Biology, FAIR Research, Open Source Software, Metagenomics, Microbiology
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
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
Introducing Computational Thinking
This workshop is for researchers at all career stages who want to understand the uses and the building blocks of computational thinking. This skill is useful for all kinds of problem solving, whether in real life or in computing.
The workshop will not teach computer programming per se. Instead...
Keywords: computational skills, data skills
Resource type: tutorial
Introducing Computational Thinking
https://griffithunilibrary.github.io/intro-computational-thinking/
https://dresa.org.au/materials/introducing-computational-thinking
This workshop is for researchers at all career stages who want to understand the uses and the building blocks of computational thinking. This skill is useful for all kinds of problem solving, whether in real life or in computing.
The workshop will not teach computer programming per se. Instead it will cover the thought processes involved should you want to learn to program.
s.stapleton@griffith.edu.au
Belinda Weaver
computational skills, data skills
WEBINAR: KBase - A knowledge base for systems biology
This record includes training materials associated with the Australian BioCommons webinar ‘KBase - A knowledge base for systems biology’. This webinar took place on 22 September 2021.
Event description
Developed for bench biologists and bioinformaticians, The Department of Energy...
Keywords: Systems Biology, FAIR Research, Open Source Software, Metagenomics, Microbiology
WEBINAR: KBase - A knowledge base for systems biology
https://zenodo.org/record/5717580
https://dresa.org.au/materials/webinar-kbase-a-knowledge-base-for-systems-biology
This record includes training materials associated with the Australian BioCommons webinar ‘KBase - A knowledge base for systems biology’. This webinar took place on 22 September 2021.
**Event description**
Developed for bench biologists and bioinformaticians, The Department of Energy Systems Biology Knowledgebase (KBase) is a free, open source, software and data science platform designed to meet the grand challenge of systems biology: predicting and designing biological function.
This webinar will provide an overview of the KBase mission and user community, as well as a tour of the online platform and basic functionality. You’ll learn how KBase can support your research: Upload data, run analysis tools (Apps), share your analysis with collaborators, and publish your data and reproducible workflows. We’ll highlight a brand new feature that enables users to link environment and measurement data to sequencing data. You’ll also find out how KBase supports findable, accessible, interoperable, and reusable (FAIR) research by providing open, reproducible, shareable bioinformatics workflows.
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.
- Q&A for Australian BioCommons KBase Webinar [PDF]: Document containing answers to questions asked during the webinar and links to additional resources
- Introduction to KBase: Australian BioCommons Webinar [PDF]: Slides presented during the webinar
**Materials shared elsewhere:**
A recording of the webinar is available on the Australian BioCommons YouTube Channel:
https://youtu.be/tJ94i9gOJfU
The slides are also available as Google slides:
https://tinyurl.com/KBase-webinar-slides
Melissa Burke (melissa@biocommons.org.au)
Dow, Ellen (orcid: 0000-0002-2079-0260)
Wood-Charlson, Elisha (orcid: 0000-0001-9557-7715)
Systems Biology, FAIR Research, Open Source Software, Metagenomics, Microbiology