21 materials found
Target audience:
ecr
EcoCommons Marine use case
This is a toy example with many of the steps required for a robust example not included. This does show how to pull together marine data from IMOS / AODN and summarise those environmental predictors and occurrence data by month. Then we show how you can pull together one model with predictors...
Keywords: Species Distribution Modelling, SDM temporal predictions, Ecology, Marine seasonal distributions, R statistical software
EcoCommons Marine use case
https://www.ecocommons.org.au/marine-use-case/
https://dresa.org.au/materials/ecocommons-marine-use-case
This is a toy example with many of the steps required for a robust example not included. This does show how to pull together marine data from IMOS / AODN and summarise those environmental predictors and occurrence data by month. Then we show how you can pull together one model with predictors that are both temporally (monthly) and spatially (Australian waters) explicit.
Again, a robust example would need calibration and validation steps, but this example does show how SDMs can be developed across time.
The data and code needed to run these examples is here:
https://github.com/EcoCommons-Australia/educational_material/tree/main/Marine_use_case
https://www.ecocommons.org.au/contact/
Species Distribution Modelling, SDM temporal predictions, Ecology, Marine seasonal distributions, R statistical software
ugrad
masters
mbr
phd
ecr
Understanding your role as a Data Steward: the role of a Data Steward across the research data management lifecycle
This presentation provides an overview of the role and responsibilities of Data Steward at the University of Adelaide across the six key phases of the research data management lifecycle.
The resource was developed by the University of Adelaide Library in December 2023 as part of the...
Keywords: research data management, RDM, RDM Training, data stewardship, research data governance, role profiles
Resource type: presentation
Understanding your role as a Data Steward: the role of a Data Steward across the research data management lifecycle
https://doi.org/10.25909/25248025
https://dresa.org.au/materials/understanding-your-role-as-a-data-steward-the-role-of-a-data-steward-across-the-research-data-management-lifecycle
This presentation provides an overview of the role and responsibilities of Data Steward at the University of Adelaide across the six key phases of the research data management lifecycle.
The resource was developed by the University of Adelaide Library in December 2023 as part of the Institutional Underpinnings program facilitated by the Australian Research Data Commons (ARDC).
University of Adelaide Library contact: https://www.adelaide.edu.au/library/ask-library
Crichton, Tom
research data management, RDM, RDM Training, data stewardship, research data governance, role profiles
mbr
phd
ecr
researcher
Introduction to the Five Safes Framework
Resources include:
* Facilitator notes
*PowerPoint presentation
This is an introduction to the Five Safes framework and has been developed for anyone with no or little knowledge of the framework can develop their own workshop.
Keywords: research data management, sensitive data, Five Safes, training material, workshop materials
Introduction to the Five Safes Framework
https://zenodo.org/records/10414022?token=eyJhbGciOiJIUzUxMiJ9.eyJpZCI6IjkzN2FjYjAwLTU2MzYtNDZhYy1hOWQxLTk0MjQyZGJiMzdjZiIsImRhdGEiOnt9LCJyYW5kb20iOiIzMjZhOWZmZDQ2MDliOGRjNTI1MjFmYWZkODQ4ODA1ZSJ9.kJshHeKFIa6LE1Pd5Fk8UBpDIJtUBZK3Z-U8FIo9LdFD0E242FoBN7j9_e7p6ZIIN8AbfTLf5WzR08XZTpKYMg
https://dresa.org.au/materials/introduction-to-the-five-safes-framework
Resources include:
* Facilitator notes
*PowerPoint presentation
This is an introduction to the Five Safes framework and has been developed for anyone with no or little knowledge of the framework can develop their own workshop.
Yolante Jones
yolante.jones@anu.edu.au
Yolante Jones
research data management, sensitive data, Five Safes, training material, workshop materials
masters
ecr
phd
support
professional
Managing Data using Acacia @ Pawsey
Acacia is Pawsey's "warm tier" or project storage. This object store is fully integrated with Setonix, Pawsey's main supercomputer, enabling fast transfer of data for project use.
These short videos introduce this high-speed object storage for hosting research data online.
Acacia is named...
Keywords: data, data skills, Acacia, Pawsey Supercomputing Centre, object storage, File systems
Managing Data using Acacia @ Pawsey
https://www.youtube.com/playlist?list=PLmu61dgAX-aYxrbqtSYHS1ufVZ9xs1AnI
https://dresa.org.au/materials/managing-data-using-acacia-pawsey
Acacia is Pawsey's "warm tier" or project storage. This object store is fully integrated with Setonix, Pawsey's main supercomputer, enabling fast transfer of data for project use.
These short videos introduce this high-speed object storage for hosting research data online.
Acacia is named after Australia’s national floral emblem the Golden Wattle – Acacia pycnantha.
training@pawsey.org.au
Pawsey Supercomputing Research Centre
data, data skills, Acacia, Pawsey Supercomputing Centre, object storage, File systems
ugrad
masters
phd
ecr
researcher
support
professional
PCon Preparing applications for El Capitan and beyond
As Lawrence Livermore National Laboratories (LLNL) prepares to stand up its next supercomputer, El Capitan, application teams prepare to pivot to another GPU architecture.
This talk presents how the LLNL application teams made the transition from distributed-memory, CPU-only architectures to...
Keywords: GPUs, supercomputing, HPC, PaCER
PCon Preparing applications for El Capitan and beyond
https://www.youtube.com/watch?v=cj7a7gWgt8o&list=PLmu61dgAX-aZ_aa6SmmExSJtXGS7L_BF9&index=4
https://dresa.org.au/materials/pcon-preparing-applications-for-el-capitan-and-beyond
As Lawrence Livermore National Laboratories (LLNL) prepares to stand up its next supercomputer, El Capitan, application teams prepare to pivot to another GPU architecture.
This talk presents how the LLNL application teams made the transition from distributed-memory, CPU-only architectures to GPUs. They share institutional best practices. They discuss new open-source software products as tools for porting and profiling applications and as avenues for collaboration across the computational science community.
Join LLNL's Erik Draeger and Jane Herriman, who presented this talk at Pawsey's PaCER Conference in September 2023.
training@pawsey.org.au
Erik Draeger
Jane Herriman
Pawsey Supercomputing Research Centre
GPUs, supercomputing, HPC, PaCER
masters
phd
researcher
ecr
support
professional
ugrad
OpenCL
Supercomputers make use of accelerators from a variety of different hardware vendors, using devices such as multi-core CPU’s, GPU’s and even FPGA’s. OpenCL is a way for your HPC application to make effective use of heterogeneous computing devices, and to avoid code refactoring for new HPC...
Keywords: supercomputing, Pawsey Supercomputing Centre, CPUs, GPUs, OpenCL, FPGAs
Resource type: activity
OpenCL
https://www.youtube.com/playlist?list=PLmu61dgAX-aa_lk5fby5PjuS49snHpyYL
https://dresa.org.au/materials/opencl
Supercomputers make use of accelerators from a variety of different hardware vendors, using devices such as multi-core CPU’s, GPU’s and even FPGA’s. OpenCL is a way for your HPC application to make effective use of heterogeneous computing devices, and to avoid code refactoring for new HPC infrastructure.
training@pawsey.org.au
Toby Potter
Pawsey Supercomputing Research Centre
Pelagos
Toby Potter
supercomputing, Pawsey Supercomputing Centre, CPUs, GPUs, OpenCL, FPGAs
masters
ecr
researcher
support
Introduction to REDCap at Griffith University
This site is designed as a companion to Griffith Library’s Research Data Capture workshops. It can also be treated as a standalone, self-paced tutorial for learning to use REDCap (Research Electronic Data Capture) a secure web application for building and managing online surveys and databases.
Keywords: REDCap, survey instruments
Resource type: tutorial
Introduction to REDCap at Griffith University
https://griffithunilibrary.github.io/redcap-intro/
https://dresa.org.au/materials/introduction-to-redcap-at-griffith-university
This site is designed as a companion to Griffith Library’s Research Data Capture workshops. It can also be treated as a standalone, self-paced tutorial for learning to use REDCap (Research Electronic Data Capture) a secure web application for building and managing online surveys and databases.
y.banens@griffith.edu.au
Yuri Banens
REDCap, survey instruments
mbr
phd
ecr
researcher
support
Introduction to text mining and analysis
In this self-paced workshop you will learn steps to:
- Build data sets: find where and how to gather textual data for your corpus or data set.
- Prepare data for analysis: explore useful processes and tools to prepare and clean textual data for analysis
- Analyse data: identify different...
Keywords: textual training materials
Resource type: tutorial
Introduction to text mining and analysis
https://griffithunilibrary.github.io/intro-text-mining-analysis/
https://dresa.org.au/materials/introduction-to-text-mining-and-analysis
In this self-paced workshop you will learn steps to:
- Build data sets: find where and how to gather textual data for your corpus or data set.
- Prepare data for analysis: explore useful processes and tools to prepare and clean textual data for analysis
- Analyse data: identify different types of analysis used to interrogate content and uncover new insights
s.stapleton@griffith.edu.au; y.banens@griffith.edu.au;
Yuri Banens
Sharron Stapleton
Ben McRae
textual training materials
mbr
phd
ecr
researcher
support
Advanced Data Wrangling with OpenRefine
This online self-paced workshop teaches advanced data wrangling skills including combining datasets, geolocating data, and “what if” exploration using OpenRefine.
Keywords: data skills, data
Resource type: tutorial
Advanced Data Wrangling with OpenRefine
https://griffithunilibrary.github.io/advanced-data-wrangle-2/
https://dresa.org.au/materials/advanced-data-wrangling-with-openrefine
This online self-paced workshop teaches advanced data wrangling skills including combining datasets, geolocating data, and “what if” exploration using OpenRefine.
s.stapleton@griffith.edu.au
Sharron Stapleton
data skills, data
mbr
phd
ecr
researcher
support
professional
Introduction to Data Cleaning with OpenRefine
Learn basic data cleaning techniques in this self-paced online workshop using open data from data.qld.gov.au and open source tool OpenRefine openrefine.org. Learn techniques to prepare messy tabular data for comupational analysis. Of most relevance to HASS disciplines, working with textual data...
Keywords: data skills, Data analysis
Resource type: tutorial
Introduction to Data Cleaning with OpenRefine
https://griffithunilibrary.github.io/data-cleaning-intro/
https://dresa.org.au/materials/introduction-to-data-cleaning-with-openrefine
Learn basic data cleaning techniques in this self-paced online workshop using open data from data.qld.gov.au and open source tool OpenRefine openrefine.org. Learn techniques to prepare messy tabular data for comupational analysis. Of most relevance to HASS disciplines, working with textual data in a structured or semi-structured format.
s.stapleton@griffith.edu.au;
Sharron Stapleton
data skills, Data analysis
mbr
phd
ecr
researcher
support
professional
Introduction to Unix
A hands-on workshop covering the basics of the Unix command line interface.
Knowledge of the Unix operating system is fundamental to the use of many popular bioinformatics command-line tools. Whether you choose to run your analyses locally or on a high-performance computing system, knowing...
Keywords: Unix, Command line, Command-line, CLI
Resource type: tutorial
Introduction to Unix
https://www.melbournebioinformatics.org.au/tutorials/tutorials/unix/unix/
https://dresa.org.au/materials/introduction-to-unix
A hands-on workshop covering the basics of the Unix command line interface.
Knowledge of the Unix operating system is fundamental to the use of many popular bioinformatics command-line tools. Whether you choose to run your analyses locally or on a high-performance computing system, knowing your way around a command-line interface is highly valuable. This workshop will introduce you to Unix concepts by way of a series of hands-on exercises.
This workshop is designed for participants with little or no command-line knowledge.
Tools: Standard Unix commands, FileZilla
Topic overview:
Section 1: Getting started
Section 2: Exploring your current directory
Section 3: Making and changing directories
Section 4: Viewing and manipulating files
Section 5: Removing files and directories
Section 6: Searching files
Section 7: Putting it all together
Section 8: Transferring files
Tutorial instructions available here: https://www.melbournebioinformatics.org.au/tutorials/tutorials/unix/unix/
For queries relating to this workshop, contact Melbourne Bioinformatics (bioinformatics-training@unimelb.edu.au).
Find out when we are next running this training as an in-person workshop, by visiting the Melbourne Bioinformaitcs Eventbrite page: https://www.eventbrite.com.au/o/melbourne-bioinformatics-13058846490
For queries relating to this workshop, contact Melbourne Bioinformatics (bioinformatics-training@unimelb.edu.au).
Morgan, Steven (orcid: 0000-0001-6038-6126)
Unix, Command line, Command-line, CLI
ugrad
masters
mbr
phd
ecr
researcher
support
professional
Managing Active Research Data
In this train-the-trainer workshop, we will be exploring and discussing methods for active data management.
Participants will become familiar with cloud storage and associated tools and services for managing active research data. Learn how to organise, maintain, store and analyse active data,...
Keywords: RDM Training, CloudStor, cloud
Resource type: lesson
Managing Active Research Data
https://doi.org/10.5281/zenodo.7259746
https://dresa.org.au/materials/managing-active-research-data
In this train-the-trainer workshop, we will be exploring and discussing methods for active data management.
Participants will become familiar with cloud storage and associated tools and services for managing active research data. Learn how to organise, maintain, store and analyse active data, and understand safe and secure ways of sharing and storing data.
Topics such as cloud storage, collaborative editing, versioning and data sharing will be discussed and demonstrated.
Sara King
Sara King
Brian Ballsun-Stanton
RDM Training, CloudStor, cloud
phd
support
masters
ecr
researcher
Programming and tidy data analysis in R
A workshop to expand the skill-set of someone who has basic familiarity with R. Covers programming constructs such as functions and for-loops, and working with data frames using the dplyr and tidyr packages. Explains the importance of a "tidy" data representation, and goes through common steps...
Keywords: R, Tidyverse, Programming
Resource type: tutorial
Programming and tidy data analysis in R
https://monashdatafluency.github.io/r-progtidy/
https://dresa.org.au/materials/programming-and-tidy-data-analysis-in-r
A workshop to expand the skill-set of someone who has basic familiarity with R. Covers programming constructs such as functions and for-loops, and working with data frames using the dplyr and tidyr packages. Explains the importance of a "tidy" data representation, and goes through common steps needed to load data and convert it into a tidy form.
To be taught as a hands on workshop, typically as two half-days.
Developed by the Monash Bioinformatics Platform and taught as part of the Data Fluency program at Monash University. License is CC-BY-4. You are free to share and adapt the material so long as attribution is given.
Paul Harrison paul.harrison@monash.edu
Paul Harrison
Richard Beare
R, Tidyverse, Programming
phd
ecr
researcher
Linear models in R
A workshop on linear models in R. Learning to use linear models provides a foundation for modelling, estimation, prediction, and statistical testing in R. Many commonly used statistical tests can be performed using linear models. Ideas introduced using linear models are applicable to many of the...
Keywords: R statistics
Resource type: tutorial
Linear models in R
https://monashdatafluency.github.io/r-linear/
https://dresa.org.au/materials/linear-models-in-r
A workshop on linear models in R. Learning to use linear models provides a foundation for modelling, estimation, prediction, and statistical testing in R. Many commonly used statistical tests can be performed using linear models. Ideas introduced using linear models are applicable to many of the more complicated statistical and machine learning models available in R.
To be taught as a hands on workshop, typically as two half-days.
Developed by the Monash Bioinformatics Platform and taught as part of the Data Fluency program at Monash University. License is CC-BY-4. You are free to share and adapt the material so long as attribution is given.
Paul Harrison paul.harrison@monash.edu
Paul Harrison
R statistics
phd
ecr
researcher
Introduction to R
An introduction to R, for people with zero coding experience.
To be taught as a hands on workshop, typically as two half-days.
Developed by the Monash Bioinformatics Platform and taught as part of the Data Fluency program at Monash University. License is CC-BY-4. You are free to share and...
Keywords: R
Resource type: tutorial
Introduction to R
https://monashdatafluency.github.io/r-intro-2/
https://dresa.org.au/materials/introduction-to-r
An introduction to R, for people with zero coding experience.
To be taught as a hands on workshop, typically as two half-days.
Developed by the Monash Bioinformatics Platform and taught as part of the Data Fluency program at Monash University. License is CC-BY-4. You are free to share and adapt the material so long as attribution is given.
Paul Harrison paul.harrison@monash.edu
Paul Harrison
R
phd
ecr
researcher
Heurist Tutorials
A set of video tutorials with accompanying walkthroughs for building your first Heurist database and website. The first three tutorials show you how to get started in Heurist. The five subsequent tutorials introduce you to the five main menus in the Heurist interface.
Keywords: Heurist, Data management, Data visualisation, Digital Humanities, Databasing, website
Resource type: tutorial
Heurist Tutorials
https://heuristnetwork.org/tutorials
https://dresa.org.au/materials/heurist-tutorials
A set of video tutorials with accompanying walkthroughs for building your first Heurist database and website. The first three tutorials show you how to get started in Heurist. The five subsequent tutorials introduce you to the five main menus in the Heurist interface.
michael.falk@sydney.edu.au
Falk, Michael
Johnson, Ian
Osmakov, Artem
Heurist, Data management, Data visualisation, Digital Humanities, Databasing, website
mbr
phd
ecr
researcher
support
The Living Book of Digital Skills
The Living Book of Digital Skills (You never knew you needed until now) is a living, open source online guide to 'modern not-quite-technical computer skills' for researchers and the broader academic community.
A collaboration between Australia's Academic Research Network (AARNet) and the...
Keywords: digital skills, digital dexterity, community, open source
Resource type: guide
The Living Book of Digital Skills
https://aarnet.gitbook.io/digital-skills-gitbook-1/
https://dresa.org.au/materials/the-living-book-of-digital-skills
*The Living Book of Digital Skills (You never knew you needed until now)* is a living, open source online guide to 'modern not-quite-technical computer skills' for researchers and the broader academic community.
A collaboration between Australia's Academic Research Network (AARNet) and the Council of Australian Librarians (CAUL), this book is the creation of the CAUL Digital Dexterity Champions and their communities.
**Contributing to the Digital Skills GitBook**
The Digital Skills GitBook is an open source project and like many projects on GitHub we welcome your contributions.
If you have knowledge or expertise on one of our [requested topics](https://aarnet.gitbook.io/digital-skills-gitbook-1/requested-articles), we would love you to write an article for the book. Please let us know what you'd like to write about via our [contributor form](https://github.com/AARNet/Digital-Skills-GitBook/issues/new?assignees=sarasrking&labels=contributors&template=contributor-form.yml&title=Contributor+form%3A+).
There are other ways to contribute too. For example, you might:
* have a great idea for a new topic to be included in one of our chapters (make a new page)
* notice some information that’s out-of-date or that could be explained better (edit a page)
* come across something in the GitBook that’s not working as it should be (submit an issue)
Sara King - sara.king@aarnet.edu.au
Sara King
Miah de Francesch
Emma Chapman
Katie Mills
Ruth Cameron
digital skills, digital dexterity, community, open source
ugrad
masters
mbr
phd
ecr
researcher
support
10 Reproducible Research things - Building Business Continuity
The idea that you can duplicate an experiment and get the same conclusion is the basis for all scientific discoveries. Reproducible research is data analysis that starts with the raw data and offers a transparent workflow to arrive at the same results and conclusions. However not all studies are...
Keywords: reproducibility, data management
Resource type: tutorial, video
10 Reproducible Research things - Building Business Continuity
https://guereslib.github.io/ten-reproducible-research-things/
https://dresa.org.au/materials/9-reproducible-research-things-building-business-continuity
The idea that you can duplicate an experiment and get the same conclusion is the basis for all scientific discoveries. Reproducible research is data analysis that starts with the raw data and offers a transparent workflow to arrive at the same results and conclusions. However not all studies are replicable due to lack of information on the process. Therefore, reproducibility in research is extremely important.
Researchers genuinely want to make their research more reproducible, but sometimes don’t know where to start and often don’t have the available time to investigate or establish methods on how reproducible research can speed up every day work. We aim for the philosophy “Be better than you were yesterday”. Reproducibility is a process, and we highlight there is no expectation to go from beginner to expert in a single workshop. Instead, we offer some steps you can take towards the reproducibility path following our Steps to Reproducible Research self paced program.
Video:
https://www.youtube.com/watch?v=bANTr9RvnGg
Tutorial:
https://guereslib.github.io/ten-reproducible-research-things/
a.miotto@griffith.edu.au; s.stapleton@griffith.edu.au; i.jennings@griffith.edu.au;
Amanda Miotto
Julie Toohey
Sharron Stapleton
Isaac Jennings
reproducibility, data management
masters
phd
ecr
researcher
support
Use the Trove Newspaper & Gazette Harvester (web app version)
This video shows how you can use the web app version of the Trove Newspaper & Gazette Harvester to download large quantities of digitised newspaper articles from Trove. Just give it a search from the Trove web interface, and the harvester will...
Keywords: Trove, newspapers, GLAM Workbench, HASS, Trove Newspaper and Gazette Harvester
Resource type: video
Use the Trove Newspaper & Gazette Harvester (web app version)
https://youtu.be/WKFuJR6lLF4
https://dresa.org.au/materials/use-the-trove-newspaper-gazette-harvester-web-app-version-to-download-large-quantities-of-digitised-articles
This video shows how you can use the web app version of the [Trove Newspaper & Gazette Harvester](https://glam-workbench.net/trove-harvester/) to download large quantities of digitised newspaper articles from Trove. Just give it a search from the Trove web interface, and the harvester will save the metadata of all the articles from the search results in a CSV (spreadsheet) file for further analysis. You can also save the full text of every article, as well as copies of the articles as JPG images, and even PDFs.
The GLAM Workbench is a collection of tools, examples, tutorials, and apps that help you make use of collection data from GLAM organisations (Galleries, Libraries, Archives, and Museums). See: [https://glam-workbench.net/](https://glam-workbench.net/)
Tim Sherratt (tim@timsherratt.org and @wragge on Twitter)
Trove, newspapers, GLAM Workbench, HASS, Trove Newspaper and Gazette Harvester
ugrad
masters
phd
ecr
researcher
support
Use QueryPic to visualise searches in Trove's digitised newspapers (part 2)
This video shows how you can construct and visualise more complex searches for digitised newspaper articles in Trove using QueryPic (see part 1 for the basics). This includes limiting the date range of your query, and changing the time...
Keywords: Trove, GLAM Workbench, visualisation, newspapers, HASS
Resource type: video
Use QueryPic to visualise searches in Trove's digitised newspapers (part 2)
https://youtu.be/J_LgNL2EM4M
https://dresa.org.au/materials/use-querypic-to-visualise-searches-in-trove-s-digitised-newspapers-part-2
This video shows how you can construct and visualise more complex searches for digitised newspaper articles in Trove using [QueryPic](https://glam-workbench.net/trove-newspapers/#querypic) (see part 1 for the basics). This includes limiting the date range of your query, and changing the time scale to zoom in and out of your search results.
The GLAM Workbench is a collection of tools, examples, tutorials, and apps that help you make use of collection data from GLAM organisations (Galleries, Libraries, Archives, and Museums). See: https://glam-workbench.net/
Tim Sherratt (tim@timsherratt.org and @wragge on Twitter)
Trove, GLAM Workbench, visualisation, newspapers, HASS
ugrad
masters
phd
ecr
researcher
Use QueryPic to visualise searches in Trove's digitised newspapers (part 1)
This video demonstrates how to use the GLAM Workbench to visualise searches for digitised newspaper articles in Trove. Using the latest version of QueryPic, we can explore the complete result set, showing how the number of matching articles...
Keywords: Trove, GLAM Workbench, visualisation, newspapers, HASS
Resource type: video
Use QueryPic to visualise searches in Trove's digitised newspapers (part 1)
https://youtu.be/vdyKNowv9gw
https://dresa.org.au/materials/use-querypic-to-visualise-searches-in-trove-s-digitised-newspapers-part-1
This video demonstrates how to use the GLAM Workbench to visualise searches for digitised newspaper articles in Trove. Using the latest version of [QueryPic](https://glam-workbench.net/trove-newspapers/#querypic), we can explore the complete result set, showing how the number of matching articles changes over time. We can even compare queries to visualise changes in language or technology. It's a great way to start exploring the possibilities of GLAM data.
The GLAM Workbench is a collection of tools, examples, tutorials, and apps that help you make use of collection data from GLAM organisations (Galleries, Libraries, Archives, and Museums). See: https://glam-workbench.net/
Tim Sherratt (tim@timsherratt.org & @wragge on Twitter)
Trove, GLAM Workbench, visualisation, newspapers, HASS
ugrad
masters
ecr
researcher