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Authors: Unsworth, Kathryn (orcid: 0...  or Beecroft, Sarah (orcid: 000... 

ARDC Digital Research Capabilities and Skills Framework: The Framework and Its Components

The ARDC's Digital Research Capabilities and Skills Framework, released in 2022, provides a structure for training programs to develop essential and advanced digital research skills. It aims to help researchers and professionals identify the necessary skills they need to leverage emerging...

Keywords: training material, skills framework, ARDC skills framework, ARDC capabilities framework, national skills framework, learning path, role profile, capabilities, FAIR implementation, skills, data management, research software, data governance, digital research infrastructure

ARDC Digital Research Capabilities and Skills Framework: The Framework and Its Components https://dresa.org.au/materials/ardc-digital-research-capabilities-and-skills-framework-the-framework-and-its-components The ARDC's Digital Research Capabilities and Skills Framework, released in 2022, provides a structure for training programs to develop essential and advanced digital research skills. It aims to help researchers and professionals identify the necessary skills they need to leverage emerging opportunities in data management, data analysis, data linking, AI, and machine learning. The framework aligns with technological advancements and encourages ongoing discussion and contributions to evolve the coverage of digital research skills. The framework focuses on digital research skills, excluding broader professional skills, and is intended for a wide range of stakeholders. It provides a structured approach for project teams and organisations to develop and enhance their digital research skills through six main components: a skills taxonomy, a skills glossary, a list of generalised roles, roles and skills-related profiles, learning paths, and a skills and roles matrix. The skills taxonomy classifies digital research skills into four capability families: Governance, Data, Software, and Digital Research Infrastructure Management. It provides a standard terminology for identifying and describing these skills. contact@ardc.edu.au Russell, Keith (type: Editor) Wong, Adeline (type: Editor) Lyrtzis, Ellen (type: Editor) training material, skills framework, ARDC skills framework, ARDC capabilities framework, national skills framework, learning path, role profile, capabilities, FAIR implementation, skills, data management, research software, data governance, digital research infrastructure
Ten Simple Rules for Researchers: Upskilling for a Rapidly Evolving Workforce

The following recommendations were inspired by the Australian Research Data Commons (ARDC) Digital Research Skills Summit 2023, that brought together Researchers, Learning Designers, Skills Trainers, and Librarians in productive discussions on how to run effective researcher skills training....

Keywords: Training, Training Material, Short Format Training, Digital Skills, Researcher Training, Learning

Ten Simple Rules for Researchers: Upskilling for a Rapidly Evolving Workforce https://dresa.org.au/materials/ten-simple-rules-for-researchers-upskilling-for-a-rapidly-evolving-workforce The following recommendations were inspired by the Australian Research Data Commons (ARDC) Digital Research Skills Summit 2023, that brought together Researchers, Learning Designers, Skills Trainers, and Librarians in productive discussions on how to run effective researcher skills training. These rules outline how to think about skills learning for researchers, plan training sessions, and efficiently maximize learning. We offer recommendations on how to design and develop learner-centered training programs (Rules 1 and 2), foster outreach, and connect with trainer communities (Rules 3 and 4). We then provide tips to manage and optimize training (Rules 5, 6, and 7), and conclude with valuable insights on preparing for uncertainty and the importance of post-training operations and continued learning (Rules 8, 9, and 10). contact@ardc.edu.au Training, Training Material, Short Format Training, Digital Skills, Researcher Training, Learning
WORKSHOP: Unlocking nf-core - customising workflows for your research

This record includes training materials associated with the Australian BioCommons workshop Unlocking nf-core - customising workflows for your research’. This workshop took place over two, 3 hour sessions on 18-19 May 2023.

Event description

Processing and analysing omics datasets poses many...

Keywords: Bioinformatics, Workflows, Nextflow, nf-core

WORKSHOP: Unlocking nf-core - customising workflows for your research https://dresa.org.au/materials/workshop-unlocking-nf-core-customising-workflows-for-your-research-1584ff39-e007-4422-9fd5-4e407df6b6c5 This record includes training materials associated with the Australian BioCommons workshop Unlocking nf-core - customising workflows for your research’. This workshop took place over two, 3 hour sessions on 18-19 May 2023. Event description Processing and analysing omics datasets poses many challenges to life scientists, particularly when we need to share our methods with other researchers and scale up our research. Public and reproducible bioinformatics workflows, like those developed by nf-core, are invaluable resources for the life science community. nf-core is a community-driven effort to provide high-quality bioinformatics workflows for common analyses including, RNAseq, mapping, variant calling, and single cell transcriptomics. A big advantage of using nf-core workflows is the ability to customise and optimise them for different computational environments, types and sizes of data and research goals.  This workshop will set you up with the foundational knowledge required to run and customise nf-core workflows in a reproducible manner. On day 1 you will learn about the nf-core tools utility, and step through the code structure of nf-core workflows. Then on day 2, using the nf-core/rnaseq workflow as an example, you will explore the various ways to adjust the workflow parameters, customise processes, and configure the workflow for your computational environment. This workshop event and accompanying materials were developed by the Sydney Informatics Hub, University of Sydney in partnership with Seqera Labs, Pawsey Supercomputing Research Centre, and Australia’s National Research Education Network (AARNet). The workshop was enabled through the Australian BioCommons - Bring Your Own Data Platforms project (Australian Research Data Commons and NCRIS via Bioplatforms Australia).  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. nfcore_Schedule: Schedule for the workshop providing a breakdown of topics and timings nfcore_Q_and_A: Archive of questions and their answers from the workshop Slack Channel. Materials shared elsewhere: This workshop follows the accompanying training materials that were developed by the Sydney Informatics Hub, University of Sydney in partnership with Seqera Labs, Pawsey Supercomputing Research Centre, and Australia’s National Research Education Network (AARNet).  https://sydney-informatics-hub.github.io/customising-nfcore-workshop Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Workflows, Nextflow, nf-core
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://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) Bioinformatics, Workflows, HPC, High Performance Computing
WORKSHOP: RNA-Seq: reads to differential genes and pathways

This record includes training materials associated with the Australian BioCommons workshop ‘RNA-Seq: reads to differential genes and pathways’. This workshop took place over two, 3.5 hour sessions on 27 and 28 September 2022.

Event description

RNA sequencing (RNA-seq) is a common method used to...

Keywords: Bioinformatics, Analysis, Transcriptomics, RNA-seq, Workflows, Nextflow, nf-co.re

WORKSHOP: RNA-Seq: reads to differential genes and pathways https://dresa.org.au/materials/workshop-rna-seq-reads-to-differential-genes-and-pathways-5a384156-d3de-4d5d-9797-e689bf6592f8 This record includes training materials associated with the Australian BioCommons workshop ‘RNA-Seq: reads to differential genes and pathways’. This workshop took place over two, 3.5 hour sessions on 27 and 28 September 2022. Event description RNA sequencing (RNA-seq) is a common method used to understand the differences in gene expression and molecular pathways between two or more groups. This workshop introduces the fundamental concepts of RNA sequencing experiments and will allow you to try out the analysis using data from a study of Williams-Beuren Syndrome, a rare disease.  In the first part of the workshop you will learn how to convert sequence reads into analysis ready count data. To do this we will use nf-core/rnaseq - a portable, scalable, reproducible and publicly available workflow on Pawsey Nimbus Cloud. In the second part of the workshop you will use the count data you created to identify differential genes and pathways using R/Rstudio. By the end of the workshop, you should be able to perform your own RNA-seq analysis for differential gene expression and pathway analysis! This workshop is presented by the Australian BioCommons and Sydney Informatics Hub 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. RNAseq reads to differential genes and pathways - Additional Resources (PDF): Additional resources compiled by the Sydney Informatics Hub rnaseq_DE_analysis_Day2.html: HTML version of code used on day 2 of the workshop rnaseq_DE_analysis_Day2.Rmd: R Markdown version of code used on day 2 of the workshop RNAseq reads to differential genes and pathways_Q_and_A (PDF): Archive of questions and their answers from the workshop Slack Channel. Materials shared elsewhere: This workshop follows the tutorial ‘RNA-seq: reads to differential gene expression workshop series’ developed by the Sydney Informatics Hub. https://sydney-informatics-hub.github.io/training.RNAseq.series-quarto/ Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Analysis, Transcriptomics, RNA-seq, Workflows, Nextflow, nf-co.re
WEBINAR: Portable, reproducible and scalable bioinformatics workflows using Nextflow and Pawsey Nimbus Cloud

This record includes training materials associated with the Australian BioCommons webinar ‘Portable, reproducible and scalable bioinformatics workflows using Nextflow and Pawsey Nimbus Cloud’. This webinar took place on 20 September 2022.

Event description 

Bioinformatics workflows can support...

Keywords: Bioinformatics, Workflows, Nextflow, Containerisation

WEBINAR: Portable, reproducible and scalable bioinformatics workflows using Nextflow and Pawsey Nimbus Cloud https://dresa.org.au/materials/webinar-portable-reproducible-and-scalable-bioinformatics-workflows-using-nextflow-and-pawsey-nimbus-cloud-824bc004-4dcb-4bb5-b0dc-a207c44bbbe6 This record includes training materials associated with the Australian BioCommons webinar ‘Portable, reproducible and scalable bioinformatics workflows using Nextflow and Pawsey Nimbus Cloud’. This webinar took place on 20 September 2022. Event description  Bioinformatics workflows can support portable, reproducible and scalable analysis of omics datasets but using workflows can be challenging for both beginners and experienced bioinformaticians. Beginners face a steep learning curve to be able to build and deploy their own bioinformatics workflows while those with more experience face challenges productionising and scaling code for custom workflows and big data.  Bioinformaticians across the world are using Nextflow to build and manage workflows. Many of these workflows are shared for others to use and supported by the community via nf-co.re. So far, 39 workflows for omics data are available with another 23 under development. These workflows cover common analyses such as RNAseq, mapping, variant calling, single cell transcriptomics and more and can be easily deployed by anyone, regardless of skill level. In this webinar, Nandan Deshpande from the Sydney Informatics Hub, University of Sydney, will discuss how you can deploy freely available Nextflow (nf.co-re) bioinformatics workflows with a single command. We describe how you can quickly get started deploying these workflows using Pawsey Nimbus Cloud. For advanced users, we introduce you to Nextflow concepts to get you started with building your own workflows that will save you time and support reproducible, portable and scalable analysis. In the latter half of the webinar, Sarah Beecroft from the Pawsey Supercomputing Research Centre will talk about their Nimbus Cloud systems. While Nextflow supports portability and can run on many computing infrastructures, we describe why we specifically love using Nimbus with Nextflow for many bioinformatics projects. We will describe some of the nf.co-re workflows that we have used on Nimbus and the research outcomes. We will also cover when not to use Nimbus and the alternatives we recommend.   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. Nextflow_Nimbus_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/VnLX63yXbJU Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Workflows, Nextflow, Containerisation
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 Skills Landscape

The Australian Research Data Commons is driving transformational change in the research data ecosystem, enabling researchers to conduct world class data-intensive research. One interconnected component of this ecosystem is skills development/uplift, which is critical to the Commons and its...

Keywords: skills, data skills, eresearch skills, community, skilled workforce, FAIR, research data management, data stewardship, data governance, data use, data generation, training material

ARDC Skills Landscape https://dresa.org.au/materials/ardc-skills-landscape-56b224ca-9e30-4771-8615-d028c7be86a6 The Australian Research Data Commons is driving transformational change in the research data ecosystem, enabling researchers to conduct world class data-intensive research. One interconnected component of this ecosystem is skills development/uplift, which is critical to the Commons and its purpose of providing Australian researchers with a competitive advantage through data.   In this presentation, Kathryn Unsworth introduces the ARDC Skills Landscape. The Landscape is a first step in developing a national skills framework to enable a coordinated and cohesive approach to skills development across the Australian eResearch sector. It is also a first step towards helping to analyse current approaches in data training to identify: - Siloed skills initiatives, and finding ways to build partnerships and improve collaboration - Skills deficits, and working to address the gaps in data skills - Areas of skills development for investment by skills stakeholders like universities, research organisations, skills and training service providers, ARDC, etc.   contact@ardc.edu.au skills, data skills, eresearch skills, community, skilled workforce, FAIR, research data management, data stewardship, data governance, data use, data generation, training material
ARDC 2023 Skills Summit - Frameworks Panel Discussion (Day 2 - February 10, 2023)

Presentations to the ARDC Skills Summit 2023 (Panel Talks Day 2 - February 10th, 2023)

Dr Peter Derbyshire - Unpacking the ATSE report - Our STEM skilled future and the need for a national skills taxonomy
Anthony Beitz - Applying Skills Framework for the Information Age (SFIA) within DSTG
Kate...

Keywords: training material, research, training, skills, framework, sfia, eresearch, skills frameworks, skills taxonomies, skills classifications, skill shortages, transferrable skills, applying SFIA, training gaps, workforce requirements, job requirements, DReSA, digital literacy, applying skills frameworks, Australian Skills Classification framework, ASC

ARDC 2023 Skills Summit - Frameworks Panel Discussion (Day 2 - February 10, 2023) https://dresa.org.au/materials/ardc-2023-skills-summit-frameworks-panel-discussion-day-2-february-10-2023-c00730b5-3444-4ccd-8f8f-9ae8ec3dfbe6 Presentations to the ARDC Skills Summit 2023 (Panel Talks Day 2 - February 10th, 2023) Dr Peter Derbyshire - Unpacking the ATSE report - Our STEM skilled future and the need for a national skills taxonomy Anthony Beitz - Applying Skills Framework for the Information Age (SFIA) within DSTG Kate Morrison - A national skills taxonomy - Australian Skills Classification (ASC) Kathryn Unsworth - ARDC Digital Research Capabilities & Skills Framework Peter Embelton - Enhancing skills uplift for researchers through the alignment and implementation of skills frameworks These presentations cover skills frameworks/taxonomies/classifications, skill shortages, transferrable skills, applying SFIA (Skills Framework for the Information Age), Australian Skills Classification framework, training gaps, workforce/job requirements, Digital Research Skills Australasia (DReSA), digital literacy and applying skills frameworks. contact@ardc.edu.au training material, research, training, skills, framework, sfia, eresearch, skills frameworks, skills taxonomies, skills classifications, skill shortages, transferrable skills, applying SFIA, training gaps, workforce requirements, job requirements, DReSA, digital literacy, applying skills frameworks, Australian Skills Classification framework, ASC
ARDC Training Materials Metadata Checklist v1.1

The ARDC Training Materials Metadata Checklist aims to support learning designers, training materials creators, trainers and national training infrastructure providers to capture key information and apply appropriate mechanisms to enable sharing and reuse of their training materials

Keywords: checklist, Training material, FAIR, standard, requirements, metadata

ARDC Training Materials Metadata Checklist v1.1 https://dresa.org.au/materials/ardc-training-materials-metadata-checklist-v1-1 The ARDC Training Materials Metadata Checklist aims to support learning designers, training materials creators, trainers and national training infrastructure providers to capture key information and apply appropriate mechanisms to enable sharing and reuse of their training materials contact@ardc.edu.au checklist, Training material, FAIR, standard, requirements, metadata
Show & Tell - Tackling 'no shows'

In this session, questions were asked on how to tackle 'no shows' for training events:

  • What are the motivations behind ‘no shows’?

  • What % of ‘no shows’ is acceptable? Any data on that?

  • Do we need to lay some gentle guilt trips?

  • Community Slides

  • Tackling ‘no shows’. What is your...

Keywords: training attendance, no shows, skills training, training material

Show & Tell - Tackling 'no shows' https://dresa.org.au/materials/show-tell-tackling-no-shows-9f0d32c0-b2af-4624-9df1-d4e087da81b6 In this session, questions were asked on how to tackle 'no shows' for training events: - What are the motivations behind ‘no shows’? - What % of ‘no shows’ is acceptable? Any data on that? - Do we need to lay some gentle guilt trips? - Community Slides - Tackling ‘no shows’. What is your approach? What would you be willing to try? contact@ardc.edu.au training attendance, no shows, skills training, training material
National skills ecosystem - call to action

In this Community Action session working groups will be formed based on the challenges/opportunities that were prioritised in Community Action session #4.

  • Skilled trainers / facilitators

  • National training registry

  • National training event calendar

  • Jointly developed training

  • Research...

Keywords: national skills initiatives, data skills, training, skills community, training material

National skills ecosystem - call to action https://dresa.org.au/materials/national-skills-ecosystem-call-to-action-ffd9b4ed-b557-496b-ac35-72467c03c71b In this Community Action session working groups will be formed based on the challenges/opportunities that were prioritised in Community Action session #4. - Skilled trainers / facilitators - National training registry - National training event calendar - Jointly developed training - Research support professionals: career/progression contact@ardc.edu.au national skills initiatives, data skills, training, skills community, training material
ARDC Skills Impact and Strategy Community Discussion

The focus of this community event arose from the ARDC SKills Summit 2021, hosted in collaboration with eResearch Australasia Conference. Two key themes identified at the Summit formed the focus of this event: 1) How to convince senior management the value of digital skills training so that they...

Keywords: training impact, evaluation, skills training, resourcing, value proposition, training material

ARDC Skills Impact and Strategy Community Discussion https://dresa.org.au/materials/ardc-skills-impact-and-strategy-community-discussion-e9d63cee-0d9c-4f8d-9c0f-58afe99b649b The focus of this community event arose from the ARDC SKills Summit 2021, hosted in collaboration with eResearch Australasia Conference. Two key themes identified at the Summit formed the focus of this event: 1) How to convince senior management the value of digital skills training so that they don't question resourcing 2) Evaluating the long-term impact of digital skills training on researchers’ workflows and outputs. You can watch the full video presentation on YouTube here: https://youtu.be/iSnE7OBILqs contact@ardc.edu.au training impact, evaluation, skills training, resourcing, value proposition, training material