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Authors: Dow, Ellen (orcid: 0000-000...  or Kalaš, Matúš (orcid: 0000-0...  or Conradsen, Cara (orcid: 000...  or Backhaus, Ann (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
WEBINAR: bio.tools - making it easier to find, understand and cite biological tools and software

This record includes training materials associated with the Australian BioCommons webinar ‘bio.tools - making it easier to find, understand and cite biological tools and software’. This webinar took place on 21 June 2022.

Event description 

bio.tools provides easy access to essential scientific...

Keywords: Bioinformatics, Research software, EDAM, Workflows, FAIR

WEBINAR: bio.tools - making it easier to find, understand and cite biological tools and software https://dresa.org.au/materials/webinar-bio-tools-making-it-easier-to-find-understand-and-cite-biological-tools-and-software-aea38c9e-0b40-4308-bafd-f7580563f520 This record includes training materials associated with the Australian BioCommons webinar ‘bio.tools - making it easier to find, understand and cite biological tools and software’. This webinar took place on 21 June 2022. Event description  bio.tools provides easy access to essential scientific and technical information about software, command-line tools, databases and services. It’s backed by ELIXIR, the European Infrastructure for Biological Information, and is being used in Australia to register software (e.g. Galaxy Australia, prokka). It underpins the information provided in the Australian BioCommons discovery service ToolFinder. Hans Ienasescu and Matúš Kalaš join us to explain how bio.tools uses a community driven, open science model to create this collection of resources and how it makes it easier to find, understand, utilise and cite them. They’ll delve into how bio.tools is using standard semantics (e.g. the EDAM ontology) and syntax (e.g. biotoolsSchema) to enrich the annotation and description of tools and resources. Finally, we’ll see how the community can contribute to bio.tools and take advantage of its key features to share and promote their own research software.   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. biotools_EDAM_slides (PDF): 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/K0J4_bAUG3Y Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Research software, EDAM, Workflows, FAIR
WORKSHOP: R: fundamental skills for biologists

This record includes training materials associated with the Australian BioCommons workshop ‘R: fundamental skills for biologists’. This workshop took place over four, three-hour sessions on 1, 8, 15 and 22 June 2022.

 

Event description

Biologists need data analysis skills to be able to...

Keywords: Bioinformatics, Analysis, Statistics, R software, RStudio, Data visualisation

WORKSHOP: R: fundamental skills for biologists https://dresa.org.au/materials/workshop-r-fundamental-skills-for-biologists-81aa00db-63ad-4962-a7ac-b885bf9f676b This record includes training materials associated with the Australian BioCommons workshop ‘R: fundamental skills for biologists’. This workshop took place over four, three-hour sessions on 1, 8, 15 and 22 June 2022.   Event description Biologists need data analysis skills to be able to interpret, visualise and communicate their research results. While Excel can cover some data analysis needs, there is a better choice, particularly for large and complex datasets.  R is a free, open-source software and programming language that enables data exploration, statistical analysis, visualisation and more. The large variety of R packages available for analysing biological data make it a robust and flexible option for data of all shapes and sizes.  Getting started can be a little daunting for those without a background in statistics and programming. In this workshop we will equip you with the foundations for getting the most out of R and RStudio, an interactive way of structuring and keeping track of your work in R. Using biological data from a model of influenza infection, you will learn how to efficiently and reproducibly organise, read, wrangle, analyse, visualise and generate reports from your data in R. Topics covered in this workshop include: Spreadsheets, organising data and first steps with R Manipulating and analysing data with dplyr Data visualisation Summarized experiments and getting started with Bioconductor   This workshop is presented by the Australian BioCommons and Saskia Freytag from WEHI  with the assistance of a network of facilitators from the national Bioinformatics Training Cooperative. 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. Schedule (PDF): A breakdown of the topics and timings for the workshop Recommended resources (PDF): A list of resources recommended by trainers and participants Q_and_A(PDF): Archive of questions and their answers from the workshop Slack Channel. Materials shared elsewhere:   This workshop follows the tutorial ‘Introduction to data analysis with R and Bioconductor’ which is publicly available. https://saskiafreytag.github.io/biocommons-r-intro/ This is derived from material produced as part of The Carpentries Incubator project https://carpentries-incubator.github.io/bioc-intro/ Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Analysis, Statistics, R software, RStudio, Data visualisation
Evaluating training at Pawsey: Motivated, confident & "changed"

This presentation outlines the digital reserach skills training evaluation methods used at Pawsey. Using the Kirpatrick Training Evaluation model in designing their training evaluation survey, Pawsey measure learning motivation (How did the participant respond to the training?), improved...

Keywords: training impact, evaluation, behavioual change, survey design, skills training, motivation, confidence, training material

Evaluating training at Pawsey: Motivated, confident & "changed" https://dresa.org.au/materials/evaluating-training-at-pawsey-motivated-confident-changed-a2435a20-bfa5-457d-afa3-08193a199f24 This presentation outlines the digital reserach skills training evaluation methods used at Pawsey. Using the Kirpatrick Training Evaluation model in designing their training evaluation survey, Pawsey measure learning motivation (How did the participant respond to the training?), improved confidence of the learner (Did participants understand the training?) and were there any behavioual changes (How participants applied their new knowledge in practice?). You can watch the video of the presentation on YouTube here: https://youtu.be/IOKVrBumEBQ contact@ardc.edu.au training impact, evaluation, behavioual change, survey design, skills training, motivation, confidence, training material
DReSA: Project team reflections

This presentation provides thoughts and reflections from the Digital Research Skills Australaisa (DReSA) project team on DReSA. Team members highlight their perspectives on value propositions and benefits for their respective institutiosn/organisations and nationally, as well as individual...

Keywords: training events, training material, training repository, skilled workforce, digital research skills, digital research training, digital research, trainers, FAIR training

DReSA: Project team reflections https://dresa.org.au/materials/dresa-project-team-reflections-9dcb8538-6b7c-4822-b0ee-fbe57085dc70 This presentation provides thoughts and reflections from the Digital Research Skills Australaisa (DReSA) project team on DReSA. Team members highlight their perspectives on value propositions and benefits for their respective institutiosn/organisations and nationally, as well as individual reflections on collaboration and working together on the project so far. You can watch the video on YouTube here: https://youtu.be/qqH92itI8SI   contact@ardc.edu.au training events, training material, training repository, skilled workforce, digital research skills, digital research training, digital research, trainers, FAIR training
ARDC 2023 Skills Summit Lightning Talks (Day 2 - February 10, 2023)

Presentations to the ARDC Skills Summit 2023 (Lightning Talks Day 2 - February 10th, 2023)
Dr Nisha Ghatak - From local to the global: NeSI's efforts in building digital skills capabilities across Aotearoa
Dr Melissa Burke - No one has time for training. Is doing less the answer?
Dr Giorgia Mori...

Keywords: training material, digital skills capability, digital skills partnerships, The Carpentries, bioinformatics training, cooperative training approaches, industry partnered training, learner pathways, user guidance, new training approaches, innovative training approaches

ARDC 2023 Skills Summit Lightning Talks (Day 2 - February 10, 2023) https://dresa.org.au/materials/ardc-2023-skills-summit-lightning-talks-day-2-february-10-2023-cde4d134-5091-420a-ad0f-a70d09c2970c Presentations to the ARDC Skills Summit 2023 (Lightning Talks Day 2 - February 10th, 2023) Dr Nisha Ghatak - From local to the global: NeSI's efforts in building digital skills capabilities across Aotearoa Dr Melissa Burke - No one has time for training. Is doing less the answer? Dr Giorgia Mori - Industry training collaborations. Is this the future? Ann Backhaus - Skills pathways for developing the research workforce - status quo or let's get creative? These presentations cover a national perspective of New Zealand's digital skills capability and partnerships, The Carpentries, bioinformatics training, innovative and cooperative training approaches, industry-partnered training, learner pathways, and the importance of user guidance. contact@ardc.edu.au training material, digital skills capability, digital skills partnerships, The Carpentries, bioinformatics training, cooperative training approaches, industry partnered training, learner pathways, user guidance, new training approaches, innovative training approaches
ARDC 2023 Skills Summit Lightning Talks (Day 2 - February 10, 2023)

Presentations to the ARDC Skills Summit 2023 (Lightning Talks Day 2 - February 10th, 2023)
Dr Nisha Ghatak - From local to the global: NeSI's efforts in building digital skills capabilities across Aotearoa
Dr Melissa Burke - No one has time for training. Is doing less the answer?
Dr Giorgia Mori...

Keywords: training material, digital skills capability, digital skills partnerships, The Carpentries, bioinformatics training, cooperative training approaches, industry partnered training, learner pathways, user guidance, new training approaches, innovative training approaches

ARDC 2023 Skills Summit Lightning Talks (Day 2 - February 10, 2023) https://dresa.org.au/materials/ardc-2023-skills-summit-lightning-talks-day-2-february-10-2023 Presentations to the ARDC Skills Summit 2023 (Lightning Talks Day 2 - February 10th, 2023) Dr Nisha Ghatak - From local to the global: NeSI's efforts in building digital skills capabilities across Aotearoa Dr Melissa Burke - No one has time for training. Is doing less the answer? Dr Giorgia Mori - Industry training collaborations. Is this the future? Ann Backhaus - Skills pathways for developing the research workforce - status quo or let's get creative? These presentations cover a national perspective of New Zealand's digital skills capability and partnerships, The Carpentries, bioinformatics training, innovative and cooperative training approaches, industry-partnered training, learner pathways, and the importance of user guidance. contact@ardc.edu.au training material, digital skills capability, digital skills partnerships, The Carpentries, bioinformatics training, cooperative training approaches, industry partnered training, learner pathways, user guidance, new training approaches, innovative training approaches
WEBINAR: bio.tools - making it easier to find, understand and cite biological tools and software

This record includes training materials associated with the Australian BioCommons webinar ‘bio.tools - making it easier to find, understand and cite biological tools and software’. This webinar took place on 21 June 2022.

Event description

bio.tools provides easy access to essential...

Keywords: Bioinformatics, Research software, EDAM, Workflows, FAIR

WEBINAR: bio.tools - making it easier to find, understand and cite biological tools and software https://dresa.org.au/materials/webinar-bio-tools-making-it-easier-to-find-understand-and-cite-biological-tools-and-software-9180e32a-f4f5-4993-a90a-a9bfcfafd4f3 This record includes training materials associated with the Australian BioCommons webinar ‘bio.tools - making it easier to find, understand and cite biological tools and software’. This webinar took place on 21 June 2022. **Event description** bio.tools provides easy access to essential scientific and technical information about software, command-line tools, databases and services. It’s backed by ELIXIR, the European Infrastructure for Biological Information, and is being used in Australia to register software (e.g. Galaxy Australia, prokka). It underpins the information provided in the Australian BioCommons discovery service ToolFinder. Hans Ienasescu and Matúš Kalaš join us to explain how bio.tools uses a community driven, open science model to create this collection of resources and how it makes it easier to find, understand, utilise and cite them. They’ll delve into how bio.tools is using standard semantics (e.g. the EDAM ontology) and syntax (e.g. biotoolsSchema) to enrich the annotation and description of tools and resources. Finally, we’ll see how the community can contribute to bio.tools and take advantage of its key features to share and promote their own research software.   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. * biotools_EDAM_slides (PDF): 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/K0J4_bAUG3Y Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Research software, EDAM, Workflows, FAIR
WORKSHOP: R: fundamental skills for biologists

This record includes training materials associated with the Australian BioCommons workshop ‘R: fundamental skills for biologists’. This workshop took place over four, three-hour sessions on 1, 8, 15 and 22 June 2022.

Event description

Biologists need data analysis skills to be able to...

Keywords: Bioinformatics, Analysis, Statistics, R software, RStudio, Data visualisation

WORKSHOP: R: fundamental skills for biologists https://dresa.org.au/materials/workshop-r-fundamental-skills-for-biologists This record includes training materials associated with the Australian BioCommons workshop ‘R: fundamental skills for biologists’. This workshop took place over four, three-hour sessions on 1, 8, 15 and 22 June 2022. **Event description** Biologists need data analysis skills to be able to interpret, visualise and communicate their research results. While Excel can cover some data analysis needs, there is a better choice, particularly for large and complex datasets.  R is a free, open-source software and programming language that enables data exploration, statistical analysis, visualisation and more. The large variety of R packages available for analysing biological data make it a robust and flexible option for data of all shapes and sizes.  Getting started can be a little daunting for those without a background in statistics and programming. In this workshop we will equip you with the foundations for getting the most out of R and RStudio, an interactive way of structuring and keeping track of your work in R. Using biological data from a model of influenza infection, you will learn how to efficiently and reproducibly organise, read, wrangle, analyse, visualise and generate reports from your data in R. Topics covered in this workshop include: - Spreadsheets, organising data and first steps with R - Manipulating and analysing data with dplyr - Data visualisation - Summarized experiments and getting started with Bioconductor This workshop is presented by the Australian BioCommons and Saskia Freytag from WEHI  with the assistance of a network of facilitators from the national Bioinformatics Training Cooperative. 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. - Schedule (PDF): A breakdown of the topics and timings for the workshop - Recommended resources (PDF): A list of resources recommended by trainers and participants - Q_and_A(PDF): Archive of questions and their answers from the workshop Slack Channel. **Materials shared elsewhere:** This workshop follows the tutorial ‘Introduction to data analysis with R and Bioconductor’ which is publicly available. https://saskiafreytag.github.io/biocommons-r-intro/ This is derived from material produced as part of The Carpentries Incubator project https://carpentries-incubator.github.io/bioc-intro/ Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Analysis, Statistics, R software, RStudio, Data visualisation
WEBINAR: bio.tools - making it easier to find, understand and cite biological tools and software

This record includes training materials associated with the Australian BioCommons webinar ‘bio.tools - making it easier to find, understand and cite biological tools and software’. This webinar took place on 21 June 2022.

Event description

bio.tools provides easy access to essential...

Keywords: Bioinformatics, Research software, EDAM, Workflows, FAIR

WEBINAR: bio.tools - making it easier to find, understand and cite biological tools and software https://dresa.org.au/materials/webinar-bio-tools-making-it-easier-to-find-understand-and-cite-biological-tools-and-software This record includes training materials associated with the Australian BioCommons webinar ‘bio.tools - making it easier to find, understand and cite biological tools and software’. This webinar took place on 21 June 2022. **Event description** bio.tools provides easy access to essential scientific and technical information about software, command-line tools, databases and services. It’s backed by ELIXIR, the European Infrastructure for Biological Information, and is being used in Australia to register software (e.g. Galaxy Australia, prokka). It underpins the information provided in the Australian BioCommons discovery service ToolFinder. Hans Ienasescu and Matúš Kalaš join us to explain how bio.tools uses a community driven, open science model to create this collection of resources and how it makes it easier to find, understand, utilise and cite them. They’ll delve into how bio.tools is using standard semantics (e.g. the EDAM ontology) and syntax (e.g. biotoolsSchema) to enrich the annotation and description of tools and resources. Finally, we’ll see how the community can contribute to bio.tools and take advantage of its key features to share and promote their own research software.   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. - biotools_EDAM_slides (PDF): 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/K0J4_bAUG3Y Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Research software, EDAM, Workflows, FAIR
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
Evaluating training at Pawsey: Motivated, confident & "changed"

This presentation outlines the digital reserach skills training evaluation methods used at Pawsey. Using the Kirpatrick Training Evaluation model in designing their training evaluation survey, Pawsey measure learning motivation (How did the participant respond to the training?), improved...

Keywords: training impact, evaluation, behavioual change, survey design, skills training, motivation, confidence, training material

Evaluating training at Pawsey: Motivated, confident & "changed" https://dresa.org.au/materials/evaluating-training-at-pawsey-motivated-confident-changed This presentation outlines the digital reserach skills training evaluation methods used at Pawsey. Using the Kirpatrick Training Evaluation model in designing their training evaluation survey, Pawsey measure learning motivation (How did the participant respond to the training?), improved confidence of the learner (Did participants understand the training?) and were there any behavioual changes (How participants applied their new knowledge in practice?). You can watch the video of the presentation on YouTube here: https://youtu.be/IOKVrBumEBQ contact@ardc.edu.au training impact, evaluation, behavioual change, survey design, skills training, motivation, confidence, training material
DReSA: Project team reflections

This presentation provides thoughts and reflections from the Digital Research Skills Australaisa (DReSA) project team on DReSA. Team members highlight their perspectives on value propositions and benefits for their respective institutiosn/organisations and nationally, as well as individual...

Keywords: training events, training material, training repository, skilled workforce, digital research skills, digital research training, digital research, trainers, FAIR training

DReSA: Project team reflections https://dresa.org.au/materials/dresa-project-team-reflections This presentation provides thoughts and reflections from the Digital Research Skills Australaisa (DReSA) project team on DReSA. Team members highlight their perspectives on value propositions and benefits for their respective institutiosn/organisations and nationally, as well as individual reflections on collaboration and working together on the project so far. You can watch the video on YouTube here: https://youtu.be/qqH92itI8SI   contact@ardc.edu.au training events, training material, training repository, skilled workforce, digital research skills, digital research training, digital research, trainers, FAIR training