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Content provider: ARDC Community Connect 

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Geophysical Research Data Processing and Modelling for 2030 Computation

The Cross-NCRIS National Data Assets program co-funded the ‘Geophysics 2030: Building a National High-Resolution Geophysics Reference Collection for 2030 Computation’ (Geophysics2030) project. At completion, Geophysics2030 i) trialled publishing vertically integrated geophysical datasets, making...

Keywords: Geophysics, Applied mathematics, Physical sciences, Computer and information sciences

Resource type: presentation

Geophysical Research Data Processing and Modelling for 2030 Computation https://dresa.org.au/materials/geophysical-research-data-processing-and-modelling-for-2030-computation The Cross-NCRIS National Data Assets program co-funded the ‘Geophysics 2030: Building a National High-Resolution Geophysics Reference Collection for 2030 Computation’ (Geophysics2030) project. At completion, Geophysics2030 i) trialled publishing vertically integrated geophysical datasets, making both raw datasets and successive levels of derivative data products available online in a new international self-describing data standard (first published in 2022); ii) co-located these datasets/data products with HPC computing resources required to process datasets at scale; and iii) developed new community software and environments allowing researchers to exploit the new data sets at high-resolution on a continental-scale. This ARDC, AuScope, NCI and TERN-funded project created new high-performance dataset and introduced a new, world-leading community platform that allows researchers to combine high-performance computing, high-resolution datasets, and flexible software workflows. The world-leading innovation was evidenced by new projects in collaboration with leading international researchers, including Jared Peacock, the United States Geological Survey-based leader of the new standards for Magnetotelluric (MT) data and Karl Kappler, DIAS Geophysics, who leads the development of ‘Aurora’, a National Science Foundation (USA) funded open-source software package for processing MT data using the new MTH5 standards. This Community Connect project, in partnership with NCI and AuScope, proposed to develop, deliver, and distribute a 2-day ‘Geophysical Research Data Processing and Modelling for 2030 Computation’ workshop in 2023. The training packages will consist of two parts, i) the utilisation of NCI for Geophysics processing and modelling, and ii) developing workflows for coupling Geophysical software, compute environments and datasets. Through previous engagement with the Geophysics community, we knew users of the 2030 Geophysics Collection were experts in their fields of geophysics data acquisition, processing and modelling. The community had high levels of computer literacy and deep technical skills in geophysics and research expertise. The workshop was targeted to support this advanced community and facilitate the usage of large co-located datasets and high-performance computing at the NCI HPC/cloud platform. rebecca@auscope.org.au Geophysics, Applied mathematics, Physical sciences, Computer and information sciences
The {traits.build} data model, R package, and workflow

This manual is a step-by-step user guide to the traits.build database model, R package and workflow. It includes a collection of tutorials for building a traits.build database and a tutorial for how to explore data within the AusTraits plant trait database.
A live version is hosted on the...

Keywords: R package, AusTraits, plant traits, database, R workflow

The {traits.build} data model, R package, and workflow https://dresa.org.au/materials/the-traits-build-data-model-r-package-and-workflow This manual is a step-by-step user guide to the `traits.build` database model, R package and workflow. It includes a collection of tutorials for building a `traits.build` database and a tutorial for how to explore data within the AusTraits plant trait database. A live version is hosted on the project's GitHub repository at traitecoevo.github.io/traits.build-book/ . This is the better resource for running the tutorials as you can easily copy sections of code into R studio. `traits.build` is a data standard, R package, and workflow that is desgined to help you build a harmonised, relational database from disparate datasets. The package was first developed to create AusTraits, an open-source database of Australian plant traits. The code has been transformed into a standalone package allowing anyone to build a relational, tabular database for any taxonomic group and any collection of traits. Related resources include:  The AusTraits Plant Trait Database - 10.5281/zenodo.3568417 (dataset), doi.org/10.1038/s41597-021-01006-6 (data paper) The AusTraits Plant Dictionary - 10.5281/zenodo.8040789 (dataset),  10.1101/2023.06.16.545047 (preprint) AusTraits Project website - austraits.org kathryn.unsworth@ardc.edu.au R package, AusTraits, plant traits, database, R workflow
CheckEM User Guide

CheckEM is an open-source web based application which provides quality control assessments on metadata and image annotations of fish stereo-imagery. It is available at marine-ecology.shinyapps.io/CheckEM. The application can assess a range of sampling methods and annotation data formats for...

Keywords: stereo-video, fish, annotation

CheckEM User Guide https://dresa.org.au/materials/checkem-user-guide CheckEM is an open-source web based application which provides quality control assessments on metadata and image annotations of fish stereo-imagery. It is available at marine-ecology.shinyapps.io/CheckEM. The application can assess a range of sampling methods and annotation data formats for common inaccuracies made whilst annotating stereo imagery. CheckEM creates interactive plots and tables in a graphical interface, and provides summarised data and a report of potential errors to download. brooke.gibbons@uwa.edu.au stereo-video, fish, annotation
TransectMeasure Annotation Guide

Annotation guide: benthic composition and relief for horizontally facing imagery

Keywords: benthos, video, annotation

TransectMeasure Annotation Guide https://dresa.org.au/materials/transectmeasure-annotation-guide Annotation guide: benthic composition and relief for horizontally facing imagery tim.langlois@uwa.edu.au benthos, video, annotation
EventMeasure Annotation Guide

EventMeasure annotation guide for baited remote underwater stereo video systems (stereo-BRUVs) for count and length

Keywords: fish, stereo-video, annotation

EventMeasure Annotation Guide https://dresa.org.au/materials/eventmeasure-annotation-guide EventMeasure annotation guide for baited remote underwater stereo video systems (stereo-BRUVs) for count and length tim.langlois@uwa.edu.au fish, stereo-video, annotation
Stereo-video workflows for fish and benthic ecologists

Stereo imagery is widely used by research institutions and management bodies around the world as a cost-effective and non-destructive method to research and monitor fish and habitats (Whitmarsh, Fairweather and Huveneers, 2017). Stereo-video can provide accurate and precise size and range...

Keywords: stereo-video, fish, sharks, habitats

Resource type: tutorial

Stereo-video workflows for fish and benthic ecologists https://dresa.org.au/materials/stereo-video-workflows-for-fish-and-benthic-ecologists Stereo imagery is widely used by research institutions and management bodies around the world as a cost-effective and non-destructive method to research and monitor fish and habitats (Whitmarsh, Fairweather and Huveneers, 2017). Stereo-video can provide accurate and precise size and range measurements and can be used to study spatial and temporal patterns in fish assemblages (McLean et al., 2016), habitat composition and complexity (Collins et al., 2017), behaviour (Goetze et al., 2017), responses to anthropogenic pressures (Bosch et al., 2022) and the recovery and growth of benthic fauna (Langlois et al. 2020). It is important that users of stereo-video collect, annotate, quality control and store their data in a consistent manner, to ensure data produced is of the highest quality possible and to enable large scale collaborations. Here we collate existing best practices and propose new tools to equip ecologists to ensure that all aspects of the stereo-video workflow are performed in a consistent way. tim.langlois@uwa.edu.au stereo-video, fish, sharks, habitats
"How To" Video Guide for the Australian Child and Youth Wellbeing Atlas

This "How To" Video Guide for the Australian Child and Youth Wellbeing Atlas covers key features, step-by-step instructions, and screen shots. It assists users in navigating the data platform with 400+ data sets on children and young people's health and wellbeing. The platform offers geospatial...

Keywords: research data, digital research skills, health data, digital research training, Community Connect, ARDC

"How To" Video Guide for the Australian Child and Youth Wellbeing Atlas https://dresa.org.au/materials/how-to-video-guide-for-the-australian-child-and-youth-wellbeing-atlas This "How To" Video Guide for the Australian Child and Youth Wellbeing Atlas covers key features, step-by-step instructions, and screen shots. It assists users in navigating the data platform with 400+ data sets on children and young people's health and wellbeing. The platform offers geospatial visualisations and maps at various geographic levels. A/Prof Rebecca Glauert, UWA, Marketa Reeves, UWA research data, digital research skills, health data, digital research training, Community Connect, ARDC
User Manual for the Australian Child and Youth Wellbeing Atlas

This user manual for the Australian Child and Youth Wellbeing Atlas covers key features of the platform, step-by-step instructions, and screen shots. It assists users in navigating the data platform with 400+ data sets on children and young people's health and wellbeing. The platform offers...

Keywords: research data, health data, digital research skills, digital research training, Community Connect, ARDC

User Manual for the Australian Child and Youth Wellbeing Atlas https://dresa.org.au/materials/user-manual-for-the-australian-child-and-youth-wellbeing-atlas This user manual for the Australian Child and Youth Wellbeing Atlas covers key features of the platform, step-by-step instructions, and screen shots. It assists users in navigating the data platform with 400+ data sets on children and young people's health and wellbeing. The platform offers geospatial visualisations and maps at various geographic levels. A/Prof Rebecca Glauert, UWA, Marketa Reeves, UWA research data, health data, digital research skills, digital research training, Community Connect, ARDC
National Transfusion Dataset Secure eResearch Platform (SeRP)/SafeHaven Training

A short training video for NTD users on how to access and use the SeRP once data access is granted.

Keywords: research data, Data analysis, research data management

National Transfusion Dataset Secure eResearch Platform (SeRP)/SafeHaven Training https://dresa.org.au/materials/national-transfusion-dataset-secure-eresearch-platform-serp-safehaven-training A short training video for NTD users on how to access and use the SeRP once data access is granted. sphpm.ntd@monash.edu research data, Data analysis, research data management
National Transfusion Dataset (NTD) Data Access Request process

A guide and resources on requesting data access from the NTD

Keywords: research data

National Transfusion Dataset (NTD) Data Access Request process https://dresa.org.au/materials/national-transfusion-dataset-ntd-data-access-request-process A guide and resources on requesting data access from the NTD sphpm.ntd@monash.edu research data
National Transfusion Dataset (NTD) Data Extraction Guide

A guide for hospital sites contributing data to the NTD.

Keywords: data management

National Transfusion Dataset (NTD) Data Extraction Guide https://dresa.org.au/materials/national-transfusion-dataset-ntd-data-extraction-guide A guide for hospital sites contributing data to the NTD. sphpm.ntd@monash.edu data management
Presentation of The Australian Companion Animal Registry of Cancers (ACARCinom)

With support from the Australian Research Data Commons (ARDC) through the Australian Data Partnership program, ACARCinom is the first Australia-wide registry of animal cancer occurrences that addresses the gaps in veterinary cancer data registries. ACARCinom aims to make a positive impact on...

Keywords: cancer, data, dog, cat

Presentation of The Australian Companion Animal Registry of Cancers (ACARCinom) https://dresa.org.au/materials/presentation-of-the-australian-companion-animal-registry-of-cancers-acarcinom With support from the Australian Research Data Commons (ARDC) through the Australian Data Partnership program, ACARCinom is the first Australia-wide registry of animal cancer occurrences that addresses the gaps in veterinary cancer data registries. ACARCinom aims to make a positive impact on cancer research for our pets. Having reliable data is crucial for understanding the patterns of cancer and for evaluating treatments in both animals and humans. Five university veterinary schools and Australia's 2 leading veterinary pathology providers are partnering in the ACARCinom project: The University of Queensland, Queensland University of Technology, University of Sydney, Gribbles Veterinary Pathology, IDEXX, University of Adelaide, Murdoch University By uniting the expertise and resources of these institutions, ACARCinom is poised to make significant advancements in understanding and combating cancer in dogs and cats. This project represents a remarkable collaboration that harnesses the power of data to unlock new insights and drive progress in the field of veterinary oncology. This video explains how the ACARCinom Dashboard works and what its functionalities are. You can have access to the ACARCinom database at the following link: acarcinom.org.au Prof Chiara Palmieri School of Veterinary Science The University of Queensland cancer, data, dog, cat masters phd researcher support