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Authors: Dow, Ellen (orcid: 0000-000...  or AMD  or Bouquin, Daina (orcid: 0000... 


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://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) Systems Biology, FAIR Research, Open Source Software, Metagenomics, Microbiology
MetaSat. An open, collaboratively-developed metadata toolkit to support the future of space exploration.

MetaSat is an open metadata toolkit for describing small satellite (and even large satellite) missions in a uniform and shareable way. Optimised for small satellite missions, MetaSat fills an informatics gap. Although there have been a number of relevant metadata sets, there has been a...

Keywords: Small satellites, metadata, vocabularies, training material

MetaSat. An open, collaboratively-developed metadata toolkit to support the future of space exploration. https://dresa.org.au/materials/metasat-an-open-collaboratively-developed-metadata-toolkit-to-support-the-future-of-space-exploration-49af7d4d-f0d1-4f95-9fbe-afbd45170a6a MetaSat is an open metadata toolkit for describing small satellite (and even large satellite) missions in a uniform and shareable way. Optimised for small satellite missions, MetaSat fills an informatics gap. Although there have been a number of relevant metadata sets, there has been a longstanding need for a vocabulary to span these community standards. A vocabulary to annotate the data and information outputs of these satellite missions, to enable search across disparate data repositories, and provide support for application of analytical services to retrieved datasets. A common problem among small satellite teams is finding information about how other small satellites were put together, what parts worked well, what weren't compatible, what were the mission goals and outcomes. A lot of this information can be found, but it's not usually described in a consistent and searchable way across projects. MetaSat helps by building a uniform language of description which can be embedded into small satellite databases and tools to connect information across projects. Although a relatively new vocabulary initiative, MetaSat has secured early adoption by SatNOGS, a global network of ground stations that collects, manages & enables access to satellite observations. Also partnering with NASA's Small Satellite Reliability Initiative, and in discussion with NASA concerning implementation of the vocabulary in other areas of its information infrastructure. You can watch the full presentation on YouTube here: https://www.youtube.com/watch?v=uaCOzNL1eh4 contact@ardc.edu.au Small satellites, metadata, vocabularies, training material
AMD Profiling

The AMD profiling workshop covers the AMD suite of tools for development of HPC applications on AMD GPUs.

You will learn how to use the rocprof profiler and trace visualization tool that has long been available as part of the ROCm software suite.

You will also learn how to use the new...

Keywords: supercomputing, performance, GPUs, CPUs, AMD, HPC, ROCm

Resource type: activity

AMD Profiling https://dresa.org.au/materials/amd-profiling The AMD profiling workshop covers the AMD suite of tools for development of HPC applications on AMD GPUs. You will learn how to use the rocprof profiler and trace visualization tool that has long been available as part of the ROCm software suite. You will also learn how to use the new Omnitools - Omnitrace and Omniperf - that were introduced at the end of 2022. Omnitrace is a powerful tracing profiler for both CPU and GPU. It can collect data from a much wider range of sources and includes hardware counters and sampling approaches. Omniperf is a performance analysis tool that can help you pinpoint how your application is performing with a visual view of the memory hierarchy on the GPU as well as reporting the percentage of peak for many different measurements. training@pawsey.org.au supercomputing, performance, GPUs, CPUs, AMD, HPC, ROCm
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://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) Systems Biology, FAIR Research, Open Source Software, Metagenomics, Microbiology
MetaSat. An open, collaboratively-developed metadata toolkit to support the future of space exploration.

MetaSat is an open metadata toolkit for describing small satellite (and even large satellite) missions in a uniform and shareable way. Optimised for small satellite missions, MetaSat fills an informatics gap. Although there have been a number of relevant metadata sets, there has been a...

Keywords: Small satellites, metadata, vocabularies, training material

MetaSat. An open, collaboratively-developed metadata toolkit to support the future of space exploration. https://dresa.org.au/materials/metasat-an-open-collaboratively-developed-metadata-toolkit-to-support-the-future-of-space-exploration MetaSat is an open metadata toolkit for describing small satellite (and even large satellite) missions in a uniform and shareable way. Optimised for small satellite missions, MetaSat fills an informatics gap. Although there have been a number of relevant metadata sets, there has been a longstanding need for a vocabulary to span these community standards. A vocabulary to annotate the data and information outputs of these satellite missions, to enable search across disparate data repositories, and provide support for application of analytical services to retrieved datasets. A common problem among small satellite teams is finding information about how other small satellites were put together, what parts worked well, what weren't compatible, what were the mission goals and outcomes. A lot of this information can be found, but it's not usually described in a consistent and searchable way across projects. MetaSat helps by building a uniform language of description which can be embedded into small satellite databases and tools to connect information across projects. Although a relatively new vocabulary initiative, MetaSat has secured early adoption by SatNOGS, a global network of ground stations that collects, manages & enables access to satellite observations. Also partnering with NASA's Small Satellite Reliability Initiative, and in discussion with NASA concerning implementation of the vocabulary in other areas of its information infrastructure. You can watch the full presentation on YouTube here: https://www.youtube.com/watch?v=uaCOzNL1eh4 contact@ardc.edu.au Small satellites, metadata, vocabularies, training material