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Authors: Barlow, Melanie (orcid: 000...  or Cooke, Steele  or Backhaus, Ann (orcid: 0000-... 

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
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 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://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 training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
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 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
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
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
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://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 training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management