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9 materials found

Authors: Dow, Ellen (orcid: 0000-000...  or Conradsen, Cara (orcid: 000...  or Doyle, Maria  or Tim Sherratt 

Sharing a Trove List as a CollectionBuilder exhibition

You’ve been collecting and annotating items relating to your research project in a Trove List. You’d like to display the contents of your list as an online exhibition for others to explore. CollectionBuilder creates online exhibitions using static web...

Keywords: Trove, Trove List, CollectionBuilder, collection, GLAM Workbench, exhibition, HASS

Resource type: tutorial

Sharing a Trove List as a CollectionBuilder exhibition https://dresa.org.au/materials/sharing-a-trove-list-as-a-collectionbuilder-exhibition You’ve been collecting and annotating items relating to your research project in a Trove List. You’d like to display the contents of your list as an online exhibition for others to explore. [CollectionBuilder](https://collectionbuilder.github.io/) creates online exhibitions using static web technologies. But how do you get your List data from Trove into CollectionBuilder? This tutorial from the Trove Data Guide walks through the complete process step-by-step. Tim Sherratt (tim@timsherratt.au) ARDC Community Data Lab Trove, Trove List, CollectionBuilder, collection, GLAM Workbench, exhibition, HASS
Create a layer in the Gazetteer of Historical Australian Placenames using metadata from Trove’s digitised maps

Trove includes thousands of digitised maps, created and published across the last few centuries. You want to create a collection of maps relating to your area of interest and explore it using the Gazetteer of Historical Australian Placenames (GHAP). You know it’s possible to add layers to GHAP,...

Keywords: Trove, maps, Gazetteer of Historical Australian Placenames (GHAP), GLAM Workbench, geospatial, HASS

Resource type: tutorial

Create a layer in the Gazetteer of Historical Australian Placenames using metadata from Trove’s digitised maps https://dresa.org.au/materials/create-a-layer-in-the-gazetteer-of-historical-australian-placenames-using-metadata-from-trove-s-digitised-maps Trove includes thousands of digitised maps, created and published across the last few centuries. You want to create a collection of maps relating to your area of interest and explore it using the Gazetteer of Historical Australian Placenames (GHAP). You know it’s possible to add layers to GHAP, but how do you get the data from Trove in a format that can be uploaded as a layer? This tutorial from the Trove Data Guide walks through the complete process step-by-step. Tim Sherratt (tim@timsherratt.au) ARDC Community Data Lab Trove, maps, Gazetteer of Historical Australian Placenames (GHAP), GLAM Workbench, geospatial, HASS
Comparing manuscript collections from Trove in Mirador

You want to compare the contents of two digitised manuscript collections and examine individual documents side-by-side. The Mirador viewer can be configured as a flexible, research workspace that displays multiple images from different sources, but how do you get...

Keywords: Trove, images, manuscripts, GLAM Workbench, IIIF, HASS, Mirador

Resource type: tutorial

Comparing manuscript collections from Trove in Mirador https://dresa.org.au/materials/comparing-manuscript-collections-in-mirador You want to compare the contents of two digitised manuscript collections and examine individual documents side-by-side. The [Mirador viewer](https://projectmirador.org/) can be configured as a flexible, research workspace that displays multiple images from different sources, but how do you get manuscript collections from Trove to Mirador? This tutorial from the Trove Data Guide walks through the complete process step-by-step. Tim Sherratt (tim@timsherratt.au) ARDC Community Data Lab Trove, images, manuscripts, GLAM Workbench, IIIF, HASS, Mirador
Working with a Trove collection in Tropy

You want to be able to work on a collection of digitised images from Trove on your desktop – adding notes, transcriptions, and annotations. Tropy is a useful tool for managing collections of research images, but how do you import a collection of images from Trove into...

Keywords: Trove, images, Tropy, IIIF, GLAM Workbench, HASS

Resource type: tutorial

Working with a Trove collection in Tropy https://dresa.org.au/materials/working-with-a-trove-collection-in-tropy You want to be able to work on a collection of digitised images from Trove on your desktop – adding notes, transcriptions, and annotations. [Tropy](https://tropy.org/) is a useful tool for managing collections of research images, but how do you import a collection of images from Trove into Tropy? This tutorial from the [Trove Data Guide](https://tdg.glam-workbench.net/home.html) walks through the complete process step-by-step. Tim Sherratt (tim@timsherratt.au) ARDC Community Data Lab Trove, images, Tropy, IIIF, GLAM Workbench, HASS
Analysing keywords in Trove’s digitised newspapers

You want to explore differences in language use across a collection of digitised newspaper articles. The Australian Text Analytics Platform provides a Keywords Analysis tool that helps you...

Keywords: text analysis, Australian Text Analytics Platform (ATAP), Trove, GLAM Workbench, Trove Newspaper and Gazette Harvester, newspapers, HASS

Resource type: tutorial

Analysing keywords in Trove’s digitised newspapers https://dresa.org.au/materials/analysing-keywords-in-trove-s-digitised-newspapers You want to explore differences in language use across a collection of digitised newspaper articles. The [Australian Text Analytics Platform](https://www.atap.edu.au/) provides a [Keywords Analysis tool](https://github.com/Australian-Text-Analytics-Platform/keywords-analysis) that helps you examine whether particular words are over or under-represented across collections of text. But how do get data from Trove’s newspapers to the keyword analysis tool? This tutorial from the [Trove Data Guide](https://tdg.glam-workbench.net/home.html) walks through the complete process step-by-step. Tim Sherratt (tim@timsherratt.au) ARDC Community Data Lab text analysis, Australian Text Analytics Platform (ATAP), Trove, GLAM Workbench, Trove Newspaper and Gazette Harvester, newspapers, HASS
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
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
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: 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