ELIXIR-NL & DTL event

Target audience and Hackathon Goals

The hackathon is intended for:

• Training providers/organizers that have lists/catalogues/websites of training events and/or training materials that they want to annotate with Bioschemas and have automatically scraped to TeSS.
• Data providers, curators or managers of Life Science resources such as Biobanks, Proteins, Samples, Beacons, Tools.

After the hackathon participants will:

• Understand how schema.org works and the motivations for using it
• Know about Bioschemas
• Know what are relevant Bioschemas profiles for their type of resource(s)
• Have annotated (a selection of) their resources with Bioschemas
• Be able to independently continue the work at their institution to annotate all their resources

The first day of the event will be suitable for anyone wanting to learn more about schema.org, bioschemas annotations and how they can help increase the visibility of Life Science web resources.
The second day will be hands-on. During that part, participants will add biochemas annotation to the resource(s) they represent. To make it possible participant will need the skills to modify the source code behind the web pages of the resource as well as have the access and permission to do it.
Participants can register either for the first day (Feb 7) or for both days (Feb 7 + Feb 8).

Bioschemas

As with any website nowadays; you’re competing in a crowded market-place. Ranking higher on (Google, Bing, Yahoo and other) search result pages or being included in relevant registries (like TeSS, the ELIXIR Training Portal) that receive more web-traffic can raise the exposure of your work to be seen by larger audiences. By using Bioschemas this increased visibility and findability is easily achievable.
Bioschemas aims to improve data discoverability in the life sciences. It does this by encouraging content providers of Life Science resources such as Proteins, Samples, Beacons, Tools, and Training events and materials to use schema.org markup for annotating their information so that their websites and services contain consistently structured information. This structured information then makes it easier to (automatically) discover, collate and analyse data distributed across different resources. Bioschemas metadata can be used to annotate various data repositories, tools and training resources and events. For instance, the ELIXIR Training Portal TeSS is Bioschemas compliant and can automatically pull structured information from training websites that use Bioschemas annotation.

The hackathon

In the first half day of this 1.5-day event, participants will learn about schema.org and Bioschemas from experts working on Bioschemas definitions and implementations for ELIXIR resources. They will present some examples of successful Bioschemas implementations in Life Science resources (Proteins, Samples, Beacons, Tools, Training), both from within and outside the Netherlands.

The second day will have the form of a hackathon during which participants will work on adding Bioschemas metadata to their resources with the help of the experts. For training resources and events, we will also add them to the ELIXIR’s Training Portal TeSS.

Programme

V2 – January 7, 2019

Location

Jaarbeurs Meetup, Jaarbeursplein, 3521 AL Utrecht, the Netherlands

Day 1 – Thursday, February 7, 2019

12.00 Registration, including lunch

13.00 Opening/Welcome (Celia van Gelder, Mateusz Kuzak, ELIXIR-Netherlands)

13:05 What is Schema.org and Bioschemas (Alasdair Gray (Heriot-Watt University, Edinburgh, UK), Leyla Garcia (EMBL-EBI, Cambridge, UK)

• Introduction Schema.org and Bioschemas
• How is Bioschemas used and what kind of different resources are annotated

13.30 Bioschemas implementation in TeSS (Niall Beard, University of Manchester, ELIXIR-TeSS)

• Event and Training Material Profiles

14.00 Examples of successful Bioschemas implementations

• Training related:
  • Galaxy Training Network (Bérénice Batut, Freiburg Galaxy Team)
  • Toxicology Data Management Trainings (Egon Willighagen, University of Maastricht)
  • Bioschemas and The Carpentries (Mateusz Kuzak, DTL/ELIXIR-NL)
• Resources:
  • Bioschemas for multiple patient registries (Bart Charbon, UMCG)
  • Schema.org annotations in Research Software Directory (Jurriaan Spaaks, the Netherlands eScience Center)

15.00 Break

15.30 The Outcomes on Elixir Bioschemas staff Exchange Program and improvements on French Resources (Victoria Dominguez, ELIXIR-France)

16.00 ELIXIR-NL ambition with Bioschemas (Mateusz Kuzak, Celia van Gelder)

16:15 Prepare for Friday hackathon

• Identify training events and materials, identify bioinformatics resources the participants want to annotate with Bioschemas in the hackathon and map them to the relevant Bioschemas Profiles
• Make groups, identify leads of groups and required expertise
• Leads will introduce relevant Bioschemas specifications for the groups and set out goals for Day 2.

17:00 End of day 1

19:00 Dinner

Day 2 – Friday, February 8, 2019

• The final composition of groups
• Short report  from each group about preparation work of Day 1 and their goals for Day 2